Dear all,
I have 5 SNPs which are all located on one relatively large gene. I would like to know which alleles have which combination of these SNPs and how frequent those alleles are. I would like to assess this with a public database. I can find frequencies of SNPs e.g. in gnomAd but I haven't found a way to assess combinations of SNPs. Can this be done and if yes, how? Thanks!
Hi Pritam,
many thanks for your answer. SNAP seems to be discontinued. Is there a comparable tool for the gnomAD database?
gnomAD do not make the individual genotypes public, so this cannot be calculated from gnomAD. Ensembl have these data calculated for 1000 Genomes variants, eg:
http://www.ensembl.org/Homo_sapiens/Transcript/Haplotypes?db=core;g=ENSG00000135744;r=1:230702523-230714122;t=ENST00000366667
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