Protective variant associated with alcohol dependence in a Mexican American cohort

... using the Genetic Type 1 Error Calculator (GEC) software [ 25 ], and the thresholds generated were thereby used to determine that this variant (rs991316) could be characterized to possess suggestive significance. LD analysis The evidence of LD across the ADH gene region can be observed in Figure 3 . The average D value across the SNP pairs in the ADH region was 0.76 in this data set. The two SNPs found to be in complete LD with ADH7 (rs991316) with high confidence were: rs283413 (D=1, r 2 =0.025, LOD=3.48, CI=0.56-1.00), and rs35719513 (D=1, r 2 =0.03, LOD=2.3, CI=0.41-1.00). Both of these SNPs were located in ADH1C (rs283413, chr4:100268190; and rs35719513, chr4:100260783) and possessed a negative beta value, suggesting a protective role. However, these SNPs were not significantly associated with the alcohol dependence phenotypes in our sample when using PLINK for the analysis as can be seen in Figure 2 . Figure 3 Linkage disequilibrium (LD) plot across ADH gene cluster. This plot

... LD with rs991316 in this study. These two SNPs had a negative beta, suggesting a protective role, but were not significantly associated with the alcohol dependence phenotypes used in this study. These two variants have been studied previously to determine their role in the rate of alcohol metabolism in white Spanish individuals [ 46 ]. In that study, rs283413 was significantly associated with the rate of alcohol metabolism, but rs35719513 was not. The ADH1C gene has been associated with alcohol

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SNP: rs283413

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