This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the rat genome
(Nov. 2004, rn4):
- mouse (Feb 2006, mm8)
- human (Mar 2006, hg18)
- dog (May 2005, canFam2)
- cow (Mar 2005, bosTau2)
- opossum (Jan 2006, monDom4)
- chicken (Feb 2004, galGal2)
- frog (Oct 2004, xenTro1)
- zebrafish (May 2005, danRer3)
For a description of the phastCons file format, see
http://genome.ucsc.edu/goldenPath/help/phastCons.html.
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If you plan to download a large file or multiple files from this
directory, we recommend you use ftp rather than downloading the files
via our website. To do so, ftp to hgdownload.cse.ucsc.edu, then go to
the directory goldenPath/rn4/phastCons9way. To download multiple files,
use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
All files in this directory are freely available for public use.
For data use restrictions regarding the other genome assemblies used
in this annotation, see http://genome.ucsc.edu/goldenPath/credits.html.
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References for phastCons:
Siepel, A., Bejerano, G., Pedersen, J.S., Hinrichs, A., Hou, M.,
Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L.W., Richards, S.,
Weinstock, G.M., Wilson, R. K., Gibbs, R.A., Kent, W.J., Miller, W.,
and Haussler, D. Evolutionarily conserved elements in vertebrate, insect,
worm, and yeast genomes. Genome Res. 15, 1034-1050 (2005).
(http://www.genome.org/cgi/doi/10.1101/gr.3715005)
Siepel, A. and Haussler, D. Phylogenetic hidden Markov models.
In Statistical Methods in Molecular Evolution (ed. Nielsen, R.) (Springer,
2005).
For a discussion of the methods used to calculate the phastCons scores,
see the description page for the Conservation track in the Genome
Browser.
Name Last modified Size Description
Parent Directory -
chr1.gz 2006-04-03 10:23 137M
chr2.gz 2006-04-03 10:30 132M
chr4.gz 2006-04-03 10:32 98M
chr3.gz 2006-04-03 10:31 95M
chr5.gz 2006-04-03 10:33 88M
chr6.gz 2006-04-03 10:34 79M
chrX.gz 2006-04-03 10:38 76M
chr7.gz 2006-04-03 10:35 76M
chr8.gz 2006-04-03 10:36 72M
chr10.gz 2006-04-03 10:24 63M
chr9.gz 2006-04-03 10:37 63M
chr14.gz 2006-04-03 10:26 57M
chr15.gz 2006-04-03 10:26 56M
chr13.gz 2006-04-03 10:25 54M
chr17.gz 2006-04-03 10:28 50M
chr11.gz 2006-04-03 10:24 48M
chr18.gz 2006-04-03 10:28 47M
chr16.gz 2006-04-03 10:27 46M
chr19.gz 2006-04-03 10:28 32M
chr20.gz 2006-04-03 10:30 28M
chr12.gz 2006-04-03 10:24 23M
chrUn.gz 2006-04-03 10:37 21M
chrUn_random.gz 2006-04-03 10:37 2.1M
chr2_random.gz 2006-04-03 10:30 1.7M
chr1_random.gz 2006-04-03 10:23 1.4M
chr5_random.gz 2006-04-03 10:33 828K
chr4_random.gz 2006-04-03 10:32 792K
chr3_random.gz 2006-04-03 10:31 772K
chr6_random.gz 2006-04-03 10:34 744K
chr14_random.gz 2006-04-03 10:26 724K
chr15_random.gz 2006-04-03 10:26 691K
chr11_random.gz 2006-04-03 10:24 542K
chr9_random.gz 2006-04-03 10:37 532K
chr16_random.gz 2006-04-03 10:27 519K
chr19_random.gz 2006-04-03 10:28 478K
chr7_random.gz 2006-04-03 10:35 475K
chrX_random.gz 2006-04-03 10:38 423K
chr10_random.gz 2006-04-03 10:24 414K
chr8_random.gz 2006-04-03 10:36 358K
chr12_random.gz 2006-04-03 10:25 291K
chr20_random.gz 2006-04-03 10:30 249K
chr18_random.gz 2006-04-03 10:28 214K
chr17_random.gz 2006-04-03 10:28 190K
chr13_random.gz 2006-04-03 10:25 164K
chrM.gz 2006-04-03 10:37 16K
md5sum.txt 2006-04-03 10:41 2.0K