Figure 1 summarizes the GWAS results for BD in the over-selected CADD sample. No individual SNP reached genome-wide significance (p<5×10−8), nor did any SNP reach genome-wide significance in the MCFTR or SAGE samples (see Supplemental Figure S3 for QQ plots of the GWAS results from each study). Results from loci reaching p<5.0×10−5 in CADD are summarized in Table 1 (full GWAS results are available from the first author on request). The most significant SNP in the CADD GWAS was rs7104461 (p=5.8×10−6), an intergenic SNP on chromosome 11 for which there are no previously reported associated phenotypes. While this SNP was not genotyped in either the MCTFR or SAGE samples, it is in linkage disequilibium with rs341058 (r2=1.0 in 1000 Genomes Pilot 1 CEU sample, distance = 8721bp; Johnson et al. 2008), which was genotyped on both MCTFR and SAGE platforms and may serve as a proxy to compare results across samples. This proxy SNP was not associated with either adolescent BD in MCTFR (p=0.30) or adult substance dependence symptoms in SAGE (p=0.87).
