This directory contains the regPotential7X data values.

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
3050243    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  3050242  3050243

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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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