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Chunk #23 — Materials and Methods — Data Analysis

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A cis-eQTL in OPRM1 is Associated with Subjective Response to Alcohol and Alcohol Use.
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Individuals’ typed genotypes at rs1799971 were obtained from the Affymetrix exome genotyping microarray. Genotypes at rs3778150 were imputed and converted to the most likely genotype, assigning genotype calls below 0.80 to missing for one individual. The info score from IMPUTE2 (Howie et al., 2009) for rs3778150 was 0.994, indicating that this SNP had been imputed with high certainty. The MAF for rs1799971 and rs3778150 was 0.14 and 0.16, respectively. Given the small number of individuals homozygous for the minor allele at both markers, genotypes at rs1799971 and rs3778150 were coded for the presence or absence of at least one minor G or C allele, respectively (rs1799971 genotypes: [AA: n = 302, AG/GG: n = 119]; rs3778150 genotypes: [TT: n = 295, CT/CC: n = 132]). Given that the study aims focused solely on these two variants, which are moderately correlated (r2 = 0.03), in relation to a set of phenotypes that were themselves moderately correlated, no corrections for multiple testing were made for any of the described analyses. Analyses conducted with the retrospective self-report measures included participants in both active