We are running a project on data from 1000 genomes and encountered a phenomenon that we'd like to check that it's not an artifact of 1000 genomes. Are there any human variant databases besides 1000 genomes? Edited: I'm looking for a data set of subjects and their variants like the vcf file supplied by 1000 genomes.
You are rather vague about what you are searching for, maybe ExAC? http://exac.broadinstitute.org/ It never hurts to share more information with us, it can only improve the accuracy of our answer(s)
the 1000 genomes vcf files ?
Precisely like the VCF file provided by 1000 genomes.