Extended Data Table 1.
UK10K-cohorts, estimated variance explained by SNVs across the 31 UK10K traits shared by both cohorts
We used the restricted maximum likelihood (REML) method implemented in GCTA to estimate phenotypic variance explained by SNV sets (MAF ≤ 1%) in our discovery sequence data (n = 3,621 individuals). SNVs were selected from the WGS data to correspond to the content of four different reference panels: HapMap2 (n = 2,331,713 SNVs), Hapmap3 (n = 1,168,695), 1000 Genomes (n = 7,475,230) and the entire UK10K reference panel (n = 8,317,582). Each GRM was individually tested against the 31 traits with phenotypic values present in both cohort studies, producing a beta, s.e. and P value for total trait variance explained by the given SNV set. Full trait names are given in Supplementary Table 1.