This directory contains the regPotential7X data values.
(These data were corrected for chroms 4,8,9 to add some missing
data to the end of the chromosomes. Updated 03 August 2007 in the UCSC
genome browser)
Please note the chromosome positions given in these files
are 1-relative positions. For example the first location
of data on chr1 is given as base position 1362:
variableStep chrom=chr1
1362 0.0
The first base position on chr1 would be given as 1.
This is different than the usual bed-format data, which would
specify these two example base positions as:
chr1 0 1
chr1 1361 1362
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Please note the description page for this data set in the genome
browser when viewing this data track:
"Reg Potential 7 species" - " ESPERR Regulatory Potential (7 species)"
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Work on RP scores is performed by members of the
<a href="http://www.bx.psu.edu/" target="_blank">Comparative Genomics and
Bioinformatics Center at Penn State University</a>. More information on this
research and the collection of known regulatory elements used in training the
score can be found at this site.
References:
King DC, Taylor J, Elnitski L, Chiaromonte F, Miller W, Hardison RC. (2005).
<a href="http://www.genome.org/cgi/content/abstract/15/8/1051" target="_blank">
Evaluation of regulatory potential and conservation scores for detecting
cis-regulatory modules in aligned mammalian genome sequences.</a>.
<em>Genome Res.</em> 15(8):1051-60.
Kolbe D, Taylor J, Elnitski L, Eswara P, Li J, Miller W, Hardison RC and
Chiaromonte F. (2004).
<a href="http://www.genome.org/cgi/content/full/14/4/700" target="_blank">
Regulatory potential scores from genome-wide three-way
alignments of human, mouse, and rat</a>.
<em>Genome Res.</em> 14(4):700-707. </p>
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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/hg18/phastCons. To download multiple files,
use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
All the files in this directory are freely available for public use.
For data use restrictions regarding the genome assemblies used in this
annotation, see http://genome.ucsc.edu/goldenPath/credits.html.
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Name Last modified Size Description
Parent Directory -
md5sum.txt 2007-09-07 12:18 1.5K
chr9.regPotential7X.hg17.gz 2006-11-16 07:38 259M
chr8.regPotential7X.hg17.gz 2006-11-15 21:55 295M
chr4.regPotential7X.hg17.gz 2006-11-15 19:37 373M
chrX.regPotential7X.hg17.gz 2006-06-13 14:50 247M
chrY.regPotential7X.hg17.gz 2006-06-13 14:40 17M
chr22.regPotential7X.hg17.gz 2006-06-13 14:39 77M
chr21.regPotential7X.hg17.gz 2006-06-13 14:35 68M
chr20.regPotential7X.hg17.gz 2006-06-13 14:34 140M
chr18.regPotential7X.hg17.gz 2006-06-13 14:31 158M
chr19.regPotential7X.hg17.gz 2006-06-13 14:26 94M
chr17.regPotential7X.hg17.gz 2006-06-13 14:20 181M
chr16.regPotential7X.hg17.gz 2006-06-13 14:20 180M
chr14.regPotential7X.hg17.gz 2006-06-13 14:09 197M
chr15.regPotential7X.hg17.gz 2006-06-13 14:08 193M
chr12.regPotential7X.hg17.gz 2006-06-13 13:56 274M
chr13.regPotential7X.hg17.gz 2006-06-13 13:55 191M
chr11.regPotential7X.hg17.gz 2006-06-13 13:41 300M
chr10.regPotential7X.hg17.gz 2006-06-13 13:36 295M
chr7.regPotential7X.hg17.gz 2006-06-13 13:03 320M
chr6.regPotential7X.hg17.gz 2006-06-13 12:51 357M
chr5.regPotential7X.hg17.gz 2006-06-13 12:34 388M
chr3.regPotential7X.hg17.gz 2006-06-13 12:21 437M
chr2.regPotential7X.hg17.gz 2006-06-13 11:50 529M
chr1.regPotential7X.hg17.gz 2006-06-13 11:14 514M