This directory contains compressed phastCons scores for multiple alignments of the following assemblies to the Human Jul. 2003 (hg16) genome: - Chimp Nov. 2003 (panTro1) - Mouse Feb 2003 (mm3) - Rat Jun. 2003 (rn3) - Chicken Feb. 2004 (galGal2) Each human chromosome has a corresponding data file. When uncompressed, the data file contains two columns: a 1-based coordinate and a score showing the posterior probability that phastCons's phylogenetic hidden Markov model (HMM) is in its most-conserved state at that base position. ---------------------------------------------------------------------- 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 R. Nielsen, ed., Statistical Methods in Molecular Evolution, Springer (in press) (2004). 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 - chr19_random.gz 2004-06-09 18:08 0 chr18_random.gz 2004-06-09 18:07 13K chrM.gz 2004-06-09 18:31 71K chr5_random.gz 2004-06-09 18:24 131K chr13_random.gz 2004-06-09 17:58 394K chr4_random.gz 2004-06-09 18:21 771K chr7_random.gz 2004-06-09 18:28 930K chr2_random.gz 2004-06-09 18:16 1.0M chr8_random.gz 2004-06-09 18:29 1.4M chr3_random.gz 2004-06-09 18:19 1.4M chr15_random.gz 2004-06-09 18:01 1.8M chr10_random.gz 2004-06-09 17:52 2.4M chr17_random.gz 2004-06-09 18:05 3.1M chr6_random.gz 2004-06-09 18:26 3.8M chrX_random.gz 2004-06-09 18:32 4.1M chr9_random.gz 2004-06-09 18:31 4.1M chrUn_random.gz 2004-06-09 18:31 6.9M chr1_random.gz 2004-06-09 18:08 9.6M chrY.gz 2004-06-09 18:32 45M chr22.gz 2004-06-09 18:16 127M chr21.gz 2004-06-09 18:15 128M chr19.gz 2004-06-09 18:08 197M chr20.gz 2004-06-09 18:14 231M chr18.gz 2004-06-09 18:07 289M chr17.gz 2004-06-09 18:05 299M chr16.gz 2004-06-09 18:03 300M chr15.gz 2004-06-09 18:01 313M chr14.gz 2004-06-09 18:00 339M chr13.gz 2004-06-09 17:58 370M chr9.gz 2004-06-09 18:31 438M chrX.gz 2004-06-09 18:32 449M chr12.gz 2004-06-09 17:56 498M chr11.gz 2004-06-09 17:54 503M chr10.gz 2004-06-09 17:52 507M chr8.gz 2004-06-09 18:29 549M chr7.gz 2004-06-09 18:28 590M chr6.gz 2004-06-09 18:26 652M chr5.gz 2004-06-09 18:24 688M chr4.gz 2004-06-09 18:21 724M chr3.gz 2004-06-09 18:19 765M chr1.gz 2004-06-09 17:48 862M chr2.gz 2004-06-09 18:13 929M