Hi Sebastien, since this is Ensembl data specific question, I would encourage you to contact [email protected] directly. You are likely to get a more precise answer there
a On Mon, Nov 26, 2012 at 10:07 AM, Sébastien Letort < [email protected]> wrote: > Hi all, > > I'd like to get frequency for some SNP in specific population but I have > strong doubt on my output. > > As an example, I tried to get minor allele frequency/count for rs1013351 > for HapMap JPT. > Filters : variation ID, Variation Set Name > > I get this output : > rs1013351 11 3952303 T 0.2367 517 > The 517 count is too big for HapMap project. > > If I click on rsid, I go to the EnsEMBL variation panel, > http://www.ensembl.org/Homo_**sapiens/Variation/Population?** > db=core;r=11:3951803-3952803;**v=rs1013351;vdb=variation;vf=**805535<http://www.ensembl.org/Homo_sapiens/Variation/Population?db=core;r=11:3951803-3952803;v=rs1013351;vdb=variation;vf=805535> > where I found for HapMap JPT a count of 19 and a frequency of 21,6% which > is consistent with hapmap.org result : > http://hapmap.ncbi.nlm.nih.**gov/cgi-perl/gbrowse/hapmap28_**B36/#search<http://hapmap.ncbi.nlm.nih.gov/cgi-perl/gbrowse/hapmap28_B36/#search> > -> SNP:rs1013351 > > So I'd like to know if my query is wrong, and if not, how could I get the > frequencies of ~1000 SNPs for given populations. > > regards, > > -- > Sébastien Letort > Inserm U1078, Génétique, Génomique fonctionnelle et Biotechnologies > 46 rue Félix Le Dantec > CS 51819 > 29218 BREST CEDEX 2 > Tel 02.98.22.34.08 > ______________________________**_________________ > Users mailing list > [email protected] > https://lists.biomart.org/**mailman/listinfo/users<https://lists.biomart.org/mailman/listinfo/users> >
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