Hello Hui Kou, The snp131OrthoPt2Pa2Rm2 table that is part of the "SNPs (131)" track on the hg19 (GRCh37) assembly maps human SNPs to chimp reference assembly coordinates (as well as to orangutan and macaque). The table contains whatever allele the chimp reference assembly has at the corresponding position in human (not necessarily an annotated chimp SNP).
To read about it, go to the track controls page for SNPs (131) and scroll down to the section "Orthologous Alleles (human assemblies only)". (One way to get to the track controls page is to click on the blue track name on the main Genome Browser display page, http://genome.ucsc.edu/cgi-bin/hgTracks.) You can download the entire table here: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/snp131OrthoPt2Pa2Rm2.txt.gz If you have further questions, please feel free to contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 12/05/10 17:40, Kou, Hui wrote: > hi, > > I want to get the genome wide snp comparison between human and chimpanzee. > > Does your site has this capability? If so, what are the steps I need to do? > > thanks for your support > > > Hui Kou > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
