Fifty-nine cohorts were genotyped using exome arrays (up to 235,116 SNVs) and two (UK Biobank and INTERVAL) were genotyped using Axiom Biobank Arrays (up to 820,000 SNVs; Supp. Table 2). In total, ~1.06M SNVs were analysed including ~64,000 SNVs on both the Axiom and Exome Arrays. Furthermore, two studies (NAGOZALC and GFG) genotyped their participants using arrays with custom content, increasing the total number of variants analysed to 1,207,583 SNVs. Individual studies performed quality control (QC; Supp. Material, Supp. Table 2) and additional QC was conducted centrally (i) to ensure alleles were consistently aligned, (ii) that there were no major sample overlaps between contributing studies, and (iii) variants conformed to Hardy–Weinberg equilibrium and call rate thresholds. We also examined the distribution of the effect sizes and test statistics across cohorts to ensure the test statistics were well-calibrated.
