PREST (30) was used to validate the reported family relationship assignments and PedCheck (310) was used to detect and correct the Mendelian inconsistencies in the data. Based on this analysis eight changes were made; four reported full-sibs were reclassified as half-sibs; three reported full-sibs and one reported half-sib were actually unrelated and excluded from further analysis. Uninformative SNPs (i.e., those with minor allele frequency [MAF] <0.1) and SNPs not in Hardy–Weinberg equilibrium (HWE) (with (p value < 0.001)) were excluded from the analyses (cf. ref 29). Six thousand eight SNP markers were genotyped. Thirty-six SNP markers that displayed excessive replicate or Mendelian errors, had more than 50% missing data, or were monomorphic were excluded. We limited our analysis to the 5,633 remaining autosomal markers. The average rate of missing data among the remaining markers was 0.10%. By subject, 1669 subjects (total dataset including EA subjects who were not included in the linkage analysis) had ≤1% missing data, and 30 subjects had 1–5% missing data. No subject had >5% missing data. By marker, 5573 markers had <1% missing data; 40 had
