Figure 1.
Manhattan plot of the ARCAGE and CE UADT cancer GWAS discovery phase.
One clearly outlying marker, rs971074 is highly correlated with rs1573496, a SNP previously associated with UADT cancer risk. Right panel QQ plot for the UADT cancer GWAS.
Table 1.
Results from the UADT cancer genome-wide and replication analysis.
Figure 2.
Imputation and LD patterns across the (a) 4q23 (ADH loci), (b) 12q24 (ALDH2), and (c) 4q21 (HEL308). Upper panel: Single marker association results for imputed (green) and directly genotyped variants (blue). Imputation performed on 2,091 cases and 3,513 study specific controls (excluded generic controls). After adjustment for the five variants that presented with replication, no variant had a p<0.0005 at any loci. Lower panel, pairwise LD estimates increasing intensities of black and red indicate higher r2 or D' statistics, respectively. Blue colour indicates that the pairwise comparison is not informative.
Figure 3.
Stratified analysis of 4 replicated SNPs located near alcohol metabolism genes.
Estimates for rs1229984 (ADH1B), rs1573496 (ADH7), rs1042758 (ADH1C) and rs4767364 (ALDH2) were derived from a log-additive genetic model. ORs were adjusted by age, sex, study and were derived from fixed effects models. “Generic” controls were not included in this analysis.
Table 2.
Association between rs1229984, rs1573496, rs698, rs4767364, and drinking intensity in ever drinkers expressed as mean of ml of ethanol consumed per day.
Figure 4.
Association between 4q21 variant (rs1494961) and UADT and lung cancers.
Estimates were derived from a log-additive model. ORs were adjusted by age, sex, study and were derived from fixed effects models. “Generic” controls were not included in this analysis.
Table 3.
Comparison of results from the genome-wide analysis with analysis in a UADT case-control series of African-American origin.
Table 4.
The 15 UADT cancer studies participating in the genome-wide and replication analysis.