Genomic control values for the eight phenotypes were acceptable at 1.07, 1.02, 1.06, 1.05, 1.05, 1.01, 1.03, and 1.06, for single variant tests of nicotine dependence, alcohol consumption, alcohol dependence, illicit drugs, behavioral disinhibition, nicotine dependence (exposed), alcohol consumption (exposed), and alcohol dependence (exposed), respectively. The covariate r2 was, .13, .28, .23, .14, .19, .40, .30, and .21. In the single variant genetic association tests no individual variant was significant after Bonferroni correction for number of SNPs tested, whether that correction included all SNPs or was restricted to rare variants. QQ plots are provided in Figures S4–S11 (see Supplement 1).
