GWAS-related meQTLs across different cancer types

We identified 2,214,458 meQTLs that overlap with GWAS linkage disequilibrium (LD) regions (r² ≥ 0.5).



e.g., "BLCA"
e.g., "rs10000012"
e.g., "CTBP1"
e.g., "cg02980000"
Cancer type
QTL type
tagSNP
LD
SNP ID
SNP position (hg19)
alleles
probe
Gene position (hg19)
Gene
Beta
t-stat
r
p-value
Traits
BLCA cis rs1790761 0.692 rs1269981 chr11:67334959 G/A cg08355456 chr11:67383691 NA 0.33 6.23 0.3 1.26E-9 Mean corpuscular volume;
BLCA cis rs11229555 0.645 rs12797488 chr11:58174653 A/T cg15696309 chr11:58395628 NA -0.55 -6.67 -0.32 8.87E-11 Ulcerative colitis;Inflammatory bowel disease;Crohn's disease;
BLCA cis rs6570726 0.791 rs1280275 chr6:145892402 C/T cg23711669 chr6:146136114 FBXO30 0.86 16.75 0.65 1.51E-47 Lobe attachment (rater-scored or self-reported);
BLCA cis rs1545257 0.537 rs12988283 chr2:24642086 G/C cg06627628 chr2:24431161 ITSN2 -0.43 -6.49 -0.32 2.64E-10 Sjögren's syndrome;
BLCA cis rs13108904 0.934 rs13134106 chr4:1302902 A/G cg13395646 chr4:1353034 KIAA1530 -0.71 -11.85 -0.52 8.84E-28 Obesity-related traits;
BLCA cis rs9611565 0.765 rs132920 chr22:41810170 T/C cg17376030 chr22:41985996 PMM1 -0.5 -7.07 -0.34 7.43E-12 Vitiligo;
BLCA cis rs823143 0.57 rs1361754 chr1:205801872 C/T cg11965913 chr1:205819406 PM20D1 -0.71 -14.14 -0.59 9.45E-37 Monocyte percentage of white cells;
BLCA cis rs8060686 0.641 rs13816 chr16:68055495 G/C cg09835421 chr16:68378352 PRMT7 -0.56 -6.95 -0.34 1.59E-11 HDL cholesterol;Metabolic syndrome;
BLCA cis rs9790314 1 rs1382426 chr3:161045933 G/A cg03342759 chr3:160939853 NMD3 -0.64 -9.79 -0.45 2.53E-20 Morning vs. evening chronotype;
BLCA cis rs1003719 0.788 rs1543749 chr21:38446621 A/G cg10648535 chr21:38446584 PIGP;TTC3 0.69 12.16 0.53 5.84E-29 Eye color traits;
BLCA cis rs12586317 0.534 rs1568200 chr14:35419592 C/T cg16230307 chr14:35515116 FAM177A1 0.75 10.41 0.47 1.65E-22 Psoriasis;
BLCA cis rs317689 0.581 rs160829 chr12:69769538 G/C cg20891283 chr12:69753455 YEATS4 0.56 8.16 0.39 5.11E-15 Response to diuretic therapy;
BLCA cis rs10876993 0.928 rs1689595 chr12:58056763 C/T cg18357645 chr12:58087776 OS9 0.53 8.44 0.4 6.54E-16 Celiac disease or Rheumatoid arthritis;
BLCA cis rs7246967 0.673 rs16999580 chr19:22923487 C/T cg23217946 chr19:22817039 ZNF492 0.53 6.75 0.33 5.42E-11 Bronchopulmonary dysplasia;
BLCA cis rs10504229 1 rs17805326 chr8:58169533 A/C cg24829409 chr8:58192753 C8orf71 -0.43 -6.88 -0.33 2.5E-11 Developmental language disorder (linguistic errors);