Article
Assessing sources of inconsistencies in genotypes and their effects on genome-wide association studies with HapMap samples.
The pharmacogenomics journal - 1 Aug 2010
Hong H, Shi L, Su Z, Ge W, Jones W D, Czika W, Miclaus K, Lambert C G, Vega S C, Zhang J, Ning B, Liu J, Green B, Xu L, Fang H, Perkins R, Lin S M, Jafari N, Park K, Ahn T, Chierici M, Furlanello C, Zhang L, Wolfinger R D, Goodsaid F, Tong W
Abstract excerpt
The discordance in results of independent genome-wide association studies (GWAS) indicates the potential for Type I and Type II errors. We assessed the repeatibility of current Affymetrix technologies that support GWAS. Reasonable reproducibility was observed for both raw intensity and the genotypes/copy number variants. We also assessed consistencies between different SNP arrays and between genotype calling...
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