How do I get the chromosome, chromosome position, alleles and Ancestral allele for each SNP in a file of refSNP numbers I obtained from HapMap?

You can use dbSNP Batch Query service to download the Flat File Report format for a list of rs numbers. The Flat File Report contains chromosome, chromosome position, and allele information for each refSNP. You may also wish to look at the ancestral allele section of the SNP FAQ archive for further information on ancestral alleles.

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