Three genes surpassed the conservative gene-based Bonferroni threshold of 2.8 × 10−6 in the EA, but not the AA subsample (Table 4). In the EA subsample, association was noted on chromosome 17q23-24 for C17orf158 (chromosome 17 open reading frame 58), and the adjacent genes BPTF and PPM1D (protein phosphatase Mg2+/Mn2+ dependent, 1D). Multiple other neighboring genes also showed aggregation of association signals although none surpassed gene-based correction. As VEGAS allows for SNPs to be assigned to the 50 kb region flanking the gene (footprint), this clustering of genes might be attributed to SNPs being assigned to the footprints of multiple neighboring genes. The association appeared to be specific to the EA subsample with corresponding p-values > 0.05 in the AA subsample. For results from the AA subsample, the lowest p-value for the gene-based association test was .00013 for Patched domain containing 3 (PTCHD3), which had a corresponding p-value of 0.61 in the EA results.
