Table 2

Disease-associated alleles from different genotyping platforms

Mean frequency (disease-associated alleles)

Proportion ancestral (disease associated alleles)


Manufacturer

Affymetrix (n = 638)

0.387

0.414

Illumina (n = 852)

0.395

0.444

Perlegen (n = 90)

0.410

0.434

Multiple platforms used (n = 430)

0.402

0.419

SNPs genotyped in study

< 500,000 (n = 597)

0.399

0.452

500,00 to 1,000,000 (n = 205)

0.390

0.478

> 1,000,000 (n = 322)

0.390

0.388


Because many studies used multiple genotyping platforms, the number of disease-associated alleles by platform sums to greater than 1143. In 19 cases, the number of genotyped SNPs was unknown. Importantly, this table only describes the characteristics of disease-associated alleles.

Lachance BMC Medical Genomics 2010 3:57   doi:10.1186/1755-8794-3-57

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