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Table 4 Validated meQTL-CpG pairs

From: meQTL and ncRNA functional analyses of 102 GWAS-SNPs associated with depression implicate HACE1 and SHANK2 genes

meQTL SNP Chromosome Associated gene No. of paired CpGs*
rs301799 1 RERE 2
rs1890946 1 NRDC 1
rs72710803 1 AL122019 2
rs7585722 2 RNF103-CHMP3 2
rs4346585 3 SOCS5P3, ZKSCAN7-AS1 3
rs13084037 3 KLHDC8B 2
rs7624336 3 TKT 1
rs6783233 3 LOC101926953 1
rs7685686 4 HTT 5
rs34937911 4 SLC30A9 1
rs60157091 5 KIF2A 1
rs200949 6 HIST1H1B 7
rs7758630 6 LOC107984041 1
rs1933802 6 HACE1--[]--LIN28B 2
rs3823624 7 MAD1L1 9
rs2043539 7 TMEM106B 2
rs7030813 9 PAX5 1
rs2670139 9 DENND1A 1
rs198457 11 - 4
rs7117514 11 SHANK2 1
rs3213572 12 SPPL3 1
rs1343605 13 OLFM4--[] 1
rs4772087 13 STK24 1
rs1045430 14 AREL1 1
rs62091461 18 RAB27B 1
rs7241572 18 KCNG2 6
rs12624433 20 SLC12A5 1
rs5995992 22 RBX1---[]-EP300 3
  1. *Validation analysis was run by applying lm models between the methylation level and genetic dominant model, adjusting for age and sex The Benjamini-Hochberg multiple-testing adjustment was applied to the p values. A CpG site was paired with the meQTL SNP if the adjusted p value < 0.05
  2. meQTL methylation quantitative trait locus, SNP single nucleotide polymorphism