Initial genotype quality control was performed per race/ethnicity-specific array, as described46. In addition, we required an array per-SNP call-rate ≥90%, resulting in 665,350 (EUR), 777,927 (LAT), 704,105 (EAS), 864,905 (AFR), and 663,783 South Asian (SAS) SNPs. We excluded SNPs with a minor allele count (MAC)<20, resulting in an MAF cutoff of 0.0001 (EUR), 0.001 (LAT), 0.001 (EAS), 0.003 (AFR), and 0.02 (SAS) and a total number of 662,517, 758,681, 700,291, 855,429, and 568,707 SNPs, respectively.
