Fig. 3.

GWAS discovery of a GMRM in the UK Biobank. (A) Number of LD-independent genomic regions identified at $5\times {10}^{-8}$ by GMRM, compared to in BoltLMM (Bolt) and Regenie (Regenie) across 21 traits. (B) For SNP markers identified at $5\times {10}^{-8}$ by Bolt, Regenie, and GMRM, we estimated the difference in ${\chi }^2$ value between GMRM and Regenie and plotted this against the difference in prediction accuracy of GMRM compared to a BayesR model, to test whether discovery power scales with improved prediction accuracy of using MAF-LD annotation groups. Shaded area gives the 95% CIs of the regression line. Full trait code descriptions are given in SI Appendix, Table S1.