Table 1

The number of SNPs present in each population and present in each commercial genotyping system

Population

CEU

JPT+CHB

YRI


SNPs in HapMap

3868157

3890416

3796934

SNPs w/MAF >= 0.05 (%)

2230515 (58%)

2046163 (53%)

2477182 (65%)

Common SNPs on Affy 100 K chip (%)

91400 (79%)

82995 (72%)

91363 (79%)

Common SNPs on Affy 500 K chip (%)

378415 (77%)

346887 (70%)

409849 (83%)

Common SNPs on Illumina 300 K chip (%)

313265 (99%)

251560 (79%)

252678 (80%)

Common SNPs on Illumina 550 K chip (%)

506543 (91%)

425631 (77%)

441884 (80%)


The percentages given are the fraction of SNPs from the overall SNP set, and from each of the genotyping platforms, that are present with a MAF of at least 0.05 in each population

Klein BMC Genetics 2007 8:58   doi:10.1186/1471-2156-8-58

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