PGS for GS:SFHS and UKB individuals were derived at 5 GWAS P-value thresholds (PT < 0.01, < 0.05, < 0.1, < 0.5 and all SNPs) using PRSice55. Genotyped SNPs (with MAF > 1%) were subjected to clump-based linkage disequilibrium (LD) pruning, using an LD r2 cut off of 0.25 and 200 kb sliding window to create SNP sets in approximate linkage equilibrium. PGS were then standardized to have a mean of zero and a unit standard deviation.
