Viability of in-house datamarting approaches for population genetics analysis of SNP genotypes

BMC Bioinformatics

Table 1 Shared SNPs among the different databases.

	dbSNP	HapMap II	HapMap III	Perlegen	Stanford
HapMap II	4097825
HapMap III	1611772	1549224
Perlegen	1585334	1267374	682386
Stanford	660823	660060	658947	294956
Michigan	525859	525307	525011	242910	525909

The number of common SNP codes has been taken from direct inspection of the raw data, after being mapped to the same reference SNP code by merging the dbSNP information. The numbers shown are the SNP codes that match among all the databases processed: dbSNP build 129, HapMap Phase II and III, Perlegen, and the human genome diversity panels from the universities of Stanford and Michigan.

ISSN: 1471-2105