We used two imputation approaches, the SNPMStat method of Lin et al. (56) to impute 246 additional SNPs in the PCLO region and Abecasis' MACH (v1) to impute 2,037,829 autosomal SNPs with R2 ≥ 0.5 (a cutoff that removes ∼90% of SNPs with unreliable imputation results while sacrificing 2-3% of reliably imputed SNPs). Both SNPMStat and MACH gave similar results in the PCLO region. Imputed genotypes were used in secondary analyses. The HapMap2 EUR panel (31, 34) was used as reference.
