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
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
-> 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
