Fig. 2

Quantify common SNP heritability enrichments for sequence-conserved omnibus ELEs. We show heritability enrichment and standardized effect size (\(\tau ^\star\)) estimates for 4 SNP annotations based on all omnibus ELEs without considering sequence conservation (NC) and the subsets with varying levels of sequence conservation (LC: low; MC: moderate; HC: high). The estimates for NC omnibus ELEs are conditional on 96 known annotations. The estimates for LC, MC, and HC omnibus ELEs are conditional on NC omnibus ELEs and 96 known annotations. a Estimates meta-analyzed across 468 GWAS datasets curated for this study and a previously defined set of 47 independent GWAS datasets, respectively. b Estimates meta-analyzed across 312 UK Biobank, 108 EUR, and 48 EAS GWAS datasets, respectively. Numerical results for a and b are available in Additional file 1: Table S7. c Comparison of heritability enrichment and \(\tau ^\star\) estimates based on 2 independent EUR GWAS for 3 representative traits. d Heritability enrichment and \(\tau ^\star\) estimates for 4 omnibus ELE annotations across 34 traits that each has EUR and EAS GWAS available. Numerical results for c and d are available in Additional file 1: Table S6. For a–d, each point denotes an estimate and each error bar denotes \(\pm 1.96\) SE. For d, dashed lines have intercept 0 and slope 1