For variants with q<0.1, we assessed variant potential to impact function either directly or via LD with other variants using GWAS3D (Li et al., 2013). GWAS3D provides an adjusted p-value from Fisher’s combined probability test incorporating the GWAS evidence of genetic association with evidence that the variant alters 1) coding or 2) conserved sequence, or 3) sites of long-range interactions, 4) binding energy for known transcription factors or lies within 5) promoter, 6) enhancer or 7) insulator elements from ENCODE and other published sources.
