We conducted single variant and burden association tests using the imputed genotypes, in the full sample of individuals with psychophysiological phenotypes reported on in the companion articles in this special issue (N ranging from 3,088 to 4,469). Q-Q plots and Manhattan plots are displayed in the supporting information. Depending on the phenotype, the number of SNPs with an imputed dosage allele count of at least three ranged from 19,284,812 (P3 genetic factor) to 21,812,431 (antisaccade error), resulting in Bonferroni corrections ranging from 2.6e−9 to 2.3e−9. At these levels of significance, there were two variants (chr2:29994680 and chr2:29978404) significantly associated with alpha EEG frequency at O1O2. However, follow-up genotyping found an imputation error in marker chr2:29994680, which affected dosage counts for both variants. After accounting for this error, the p values for these SNPs dropped to nonsignificant levels. The results are displayed in Table 3, which includes all p values less than the conventional genome-wide significance threshold of 5e−8, even though p < 5e−8 is not genome-wide significant in this context.
