To overcome the limitations in MAGMA, we modified MAGMA approach to create Hi-C coupled MAGMA or H-MAGMA to assign non-coding SNPs to their cognate genes based on long range interactions in disease-relevant tissues measured by Hi-C. H-MAGMA advances conventional MAGMA (hereafter referred to as cMAGMA) by incorporating relevant functional genomics evidence and allowing developmental stage and cell-type specific gene mapping. H-MAGMA also differs from traditional Hi-C guided gene mapping, as it employs the genome-wide mapping capability of MAGMA. While traditional Hi-C guided gene mapping restricts its analysis to genome-wide significant (GWS) loci7, H-MAGMA can leverage signals from sub-threshold loci that explain a significant proportion of heritability8.
