Fig. 3: Colocalization of genomic signal for depression with methylation levels in individuals exposed to childhood maltreatment.
a Shown is colocalization results of blood/brain methylation quantitative trait loci (meQTL) effect and major depressive disorder (MDD) genomic summary data obtained from individuals exposed to childhood maltreatment (Ncases = 17,225, Ncontrols = 45,372). Blue circle indicates meQTL effects, and red triangle indicates genetic effects on MDD; three different blue/red colors represent 3 colocalized variants rs11777027, rs2340953 and rs28631334, respectively. The center of each dot represents the beta, with error bars indicating the 95% confidence intervals (CIs). Source data are provided as a Source Data file. b Shown is scatter plot for the colocalization pair of blood meQTL cg25981315 and MDD genetic signal within CM exposure group rs2340953, with the highest colocalization posterior probability of 16.8% from eCAVIAR. c Shown is locus zoom around the index variant rs7846217 generated from LocusZoom.org. Three colocalized variants rs2340953, rs11777027 and rs28631334 are labeled, showing linkage disequilibrium (LD) with rs7846217. The LD r2 are 0.94, 0.96 and 0.76, respectively, with 1000 Genome as reference. d Shown is protein-protein interaction (PPI) network for IDO2 quired from STRING. The tryptophan-kynurenine catabolic process is the top rank pathway in PPI and are labeled using red dots.
