PEGASUS gene hits are enriched for known GWA study associations compared to minSNP gene hits. Shown are the numbers of minSNP gene hits (blue) and PEGASUS gene hits (orange) that contain known GWA study associations and gene hits not previously found in GWA studies (gray) for 12 GWA study data sets. To the right of each bar are positive predictive values (PPV) for each gene score for every data set; where possible, boldface type indicates the gene score with the highest PPV for each disease and “NA” means that PPV is undefined, which occurs when there are zero gene hits. A gene hit is a gene with a score of $<2.8×10−6,$ and known GWA study associations are genes containing genome-wide significant SNPs in GWA studies conducted with different data sets from the 12 data sets analyzed here. We find that PEGASUS gene hits have as much as 2.8-fold higher PPV than minSNP gene hits.