Fig. 1

Overview of the ME-only eQTL analysis. a The number of detected eQTLs with Benjamini-Hochberg FDR < 10% in each tissue. Bars are colored by tissue clusters based on cis-eQTL as shown in b (tree). b Similarity (Spearman’s correlation coefficient ρ) between different tissues based on cis-eQTL FDR values (lower triangle) and gene expression TPM values (upper triangle). Gene-pMEI pairs with FDR < 10% in at least one tissue are selected for the analysis. The tree on the left of the plot was based on the hierarchical clustering of the cis-eQTL results, and the branches are colored to five groups. Tissue text colors in a and b were based on the hierarchical clustering tree of TPM results (data not shown). c The relationship between the eQTL count (FDR < 10%) and the individual count in different tissues. Tissue text is colored by tissue clusters based on cis-eQTL in b (tree). The axes are in log scale. d Gene-pMEI pair count and the number of tissues they were detected as significant for coding and non-coding genes. e Effect size (beta value) distribution for coding and non-coding eQTLs of different types of pMEIs. Tissue abbreviations: AdS, adipose subcutaneous; AdV, adipose visceral omentum; AG, adrenal gland; ArA, artery aorta; ArC, artery coronary; ArT, artery tibial; BAm, brain amygdala; BAn, brain anterior cingulate cortex BA24; BCa, brain caudate basal ganglia; BCH, brain cerebellar hemisphere; BC, brain cerebellum; BCo, brain cortex; BFC, brain frontal cortex BA9; BHi, brain hippocampus; BHy, brain hypothalamus; BNu, brain nucleus accumbens basal ganglia; BPu, brain putamen basal ganglia; BSp, brain spinal cord cervical c-1; BSu, brain substantia nigra; Br, breast mammary tissue; CE, cells EBV-transformed lymphocytes; CT, cells transformed fibroblasts; CoS, colon sigmoid; CoT, colon transverse; EG, esophagus gastroesophageal junction; EMc, esophagus mucosa; EMs, esophagus muscularis; HA, heart atrial appendage; HL, heart left ventricle; Li, liver; Lu, lung; MSG, minor salivary gland; MuS, muscle skeletal; NT, nerve tibial; O, ovary; Pa, pancreas; Pi, pituitary; Pr, prostate; SN, skin not sun-exposed suprapubic; SS, skin sun-exposed lower leg; SIT, small intestine terminal ileum; Sp, spleen; St, stomach; Te, testis; Th, thyroid; U, uterus; V, vagina; B, whole blood