In this paper, we use HapMap Project Phase 3 (HapMap3 [46]) SNPs for our regression, 1000G SNPs [47] for our reference panel, and we only partition the heritability of SNPs with minor allele frequency above 5% (see Supplementary Note). The details of the regression, including outlier removal, out-of-bounds estimates, regression weights, and GC correction are in the Supplementary Note.
