This file is from:

This directory contains conservation scoring by phyloP (phylogenetic p-values)
from the PHAST package ( for multiple
alignments of 10 primate genomes to the Gorilla genome.

Files in this directory are:
    primate.mod      phyloP tree model with branch lengths for all 11 species
		gorilla, chimp, human, gibbon, orangutan, baboon,
		rhesus, marmoset, tarsier, mouse lemur, bushbaby
		(gorGor3, panTro3, hg19, nomLeu1, ponAbe2, papHam1,
		rheMac2, calJac3, tarSyr1, micMur1, otoGar1)

    phyloP11way.wigFix.gz phyloP scores for all 11 species, wiggle fixed step phyloP scores for all 11 species in bigWig format

The multiple alignments and methods description are at:

For more information about this data, see the track
description for the Conservation track:

Assemblies used in these alignments:

Gorilla gorilla gorilla                 May  2011   Sanger gorGor3.1/gorGor3
Chimp           Pan troglodytes         Oct. 2010   CGSC 2.1.3/panTro3
Human           Homo sapiens            Feb. 2009   GRCh37/hg19
Gibbon          Nomascus leucogenys     Jan. 2010   GGSC Nleu1.0/nomLeu1
Orangutan       Pongo pygmaeus abelii   Jul. 2007   WUGSC 2.0.2/ponAbe2
Baboon          Papio hamadryas         Nov. 2008   Baylor 1.0/papHam1
Rhesus          Macaca mulatta          Jan. 2006   MGSC Merged 1.0/rheMac2
Marmoset        Callithrix jacchus      Mar. 2009   WUGSC 3.2/calJac3
Tarsier         Tarsius syrichta        Aug. 2008   Broad/tarSyr1
Mouse lemur     Microcebus murinus      Jun. 2003   Broad/micMur1
Bushbaby        Otolemur garnettii      Dec. 2006   Broad/otoGar1

To download a large file or multiple files from this directory, we recommend 
that you use rsync or ftp rather than downloading the files via our website:

   rsync -av --progress \
        rsync:// ./


    user name: anonymous
    password: <your email address>
    go to the directory goldenPath/gorGor3/phyloP11way

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.

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

References for phastCons and phyloP:

Pollard KS, Hubisz MJ, Siepel A. Detection of non-neutral substitution rates
on mammalian phylogenies. Genome Res. 2009 Oct 26. [Epub ahead of print]

Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson
H, Spieth J, Hillier LW, Richards S, et al. Evolutionarily conserved elements
in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005
Aug;15(8):1034-50.  (

      Name                    Last modified      Size  Description
Parent Directory - primate.mod 2011-12-07 09:53 616 phyloP11way.wigFix.gz 2011-12-07 12:00 2.4G 2011-12-07 14:30 4.5G md5sum.txt 2011-12-08 11:09 196