This directory contains the regPotential7X data values for the March
2006 hg18 human genome assembly. These regulatory potential were generated
by members of the Comparative Genomics and Bioinformatics Center at Penn
State University. More information about this research and the collection
of known regulatory elements used in training the score can be found at the
website http://www.bx.psu.edu/.
Please note that the chromosome positions given in these files are 1-based
positions; in this case, the first base position on a chromosome is "1". In
this data set, the first location of data on chr1 is given as base position
1362:
variableStep chrom=chr1
1362 0.0
This differs from our usual BED-format data, in which positions are 0-based,
i.e. the first base position on a chromosome is "0".
For more information about this data set, see the Genome Browser description
page for the track labeled "7X Reg Potential".
(These data were corrected for chroms 3,4,9,10,20,21 to add some missing
data to the end of the chromosomes. Updated 03 August 2007 in the UCSC
genome browser)
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References:
King DC, Taylor J, Elnitski L, Chiaromonte F, Miller W, Hardison RC.
Evaluation of regulatory potential and conservation scores for detecting
cis-regulatory modules in aligned mammalian genome sequences.
(http://www.genome.org/cgi/content/abstract/15/8/1051)
Genome Res. 2005 Aug;15(8):1051-60.
Kolbe D, Taylor J, Elnitski L, Eswara P, Li J, Miller W, Hardison RC and
Chiaromonte F. Regulatory potential scores from genome-wide three-way
alignments of human, mouse, and rat.
(http://www.genome.org/cgi/content/full/14/4/700)
Genome Res. 2004 Apr;14(4):700-7.
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To download a large file or multiple files from this directory, we recommend
that you use ftp rather than downloading the files via our website. To do so:
ftp hgdownload.cse.ucsc.edu
user name: anonymous
password: <your email address>
go to the directory goldenPath/hg18/regPotential7X
To download multiple files from the UNIX command line, use the "mget" command.
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
Use the "prompt" command to toggle the interactive mode if you do not want
to be prompted for each file that you download.
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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.
Name Last modified Size Description
Parent Directory -
md5sum.txt 2007-09-07 12:22 1.5K
chrY.regPotential7X.hg18.gz 2006-06-13 14:05 17M
chrX.regPotential7X.hg18.gz 2006-06-13 14:14 246M
chr22.regPotential7X.hg18.gz 2006-06-13 14:04 77M
chr21.regPotential7X.hg18.gz 2007-01-18 14:26 67M
chr20.regPotential7X.hg18.gz 2007-01-18 14:14 139M
chr19.regPotential7X.hg18.gz 2006-06-13 13:58 94M
chr18.regPotential7X.hg18.gz 2006-06-13 13:53 157M
chr17.regPotential7X.hg18.gz 2006-06-13 13:53 180M
chr16.regPotential7X.hg18.gz 2006-06-13 13:42 179M
chr15.regPotential7X.hg18.gz 2006-06-13 13:43 191M
chr14.regPotential7X.hg18.gz 2006-06-13 13:30 196M
chr13.regPotential7X.hg18.gz 2006-06-13 13:29 189M
chr12.regPotential7X.hg18.gz 2006-06-13 13:12 272M
chr11.regPotential7X.hg18.gz 2006-06-13 13:10 298M
chr10.regPotential7X.hg18.gz 2007-01-18 13:53 293M
chr9.regPotential7X.hg18.gz 2007-01-18 13:06 261M
chr8.regPotential7X.hg18.gz 2006-06-13 12:30 292M
chr7.regPotential7X.hg18.gz 2006-06-13 12:27 319M
chr6.regPotential7X.hg18.gz 2006-06-13 12:09 354M
chr5.regPotential7X.hg18.gz 2006-06-13 12:05 386M
chr4.regPotential7X.hg18.gz 2007-01-18 12:26 371M
chr3.regPotential7X.hg18.gz 2007-01-18 11:21 435M
chr2.regPotential7X.hg18.gz 2006-06-13 11:19 526M
chr1.regPotential7X.hg18.gz 2006-06-13 10:45 515M