In addition, 1,318 of the 3,925 individuals were genotyped with ~516K SNPs, so we estimated relationships among these individuals (641 adults and 677 16-year-olds) with 516,345 SNPs and estimated the remaining pairwise relationships with 294,831 SNPs. We adjusted the two parts of the relationship matrix according to the number of SNPs used (assuming c = 0). The resulting estimate of proportion of variance explained by causal variants is no different from that using all the individuals with ~295K SNPs (Table 1).
