Using a PheWAS approach in the UK Biobank, we found four of the novel loci to have pleiotropic associations with body composition traits (FAM9B [HDL-C], EDA2R [HDL, TG], TSPAN6 [LDL-C, TC], and DOCK11 [HDL-C]), four variants with coronary atherosclerosis and ischemic heart disease, three with immune-related biomarkers (SLC9A7 [HDL-C], CLCN5 [HDL-C], THOC2 [HDL-C]), and two with blood clotting-related biomarkers (KLF8 [TG], TEX11 [HDL-C]) (Additional file 32: Table S21). This evidence concerns the gene CLCN5 and coronary atherosclerosis.