After exclusion of suboptimal DNA based on QC criteria, data from 2,091 cases and 3,513 study specific controls and 4,821 generic controls were available for statistical analyses (Table S1) with 294,620 genetic variants. The overall results did not show a large deviation from what was expected by chance (λ = 1.07) (Figure 1). One genetic variant, rs971074, was strongly associated with UADT cancers (p<1×10−8). rs971074 is positioned in the ADH7 locus on chromosome 4q23 and is highly correlated (r2 = 1.0 CEU hapmap) with the SNP in ADH7, rs1573496, that we have described previously to be associated with UADT cancer risk [14]. Similarly, rs1789924, which is highly correlated (r2 = 0.97 CEU hapmap) with ADH1C rs698, was also highly ranked (p = 2×10−6).
