Re-Ranking Sequencing Variants in the Post-GWAS Era for Accurate Causal Variant Identification
Figure 4
Naïve test statistics and re-ranking statistics for regions surrounding rs78246868 in the 8q24.21 region for association with prostate cancer risk.
Naïve test statistics (A), and re-ranking statistics adjusting for genotyping accuracy (B) for SNPs in LD (r2>0.2) with rs78246868. Circles highlight SNPs whose rank changed considerably after re-ranking. Color indicates pair-wise correlation with the most significant SNP in the region selected based on the naïve ranking (purple diamond). Other shapes indicate genotyping accuracy over all 7 studies as measured by ρmeta. rs78246868 is no longer the most significant SNP in the region after re-ranking.