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 rs2070488 0.775 rs4407366 chr3:38521425 C/T cg24069376 chr3:38537580 EXOG 0.28 6.82 0.33 3.52E-11 Electrocardiographic conduction measures;
BLCA cis rs9814567 1 rs4417907 chr3:134291363 C/T cg06109529 chr3:134205091 CEP63;ANAPC13 -0.56 -8.57 -0.4 2.73E-16 Neurocognitive impairment in HIV-1 infection (dichotomous);
BLCA cis rs801193 0.591 rs4506088 chr7:66135457 G/A cg12463550 chr7:65579703 CRCP -0.43 -6.38 -0.31 5.19E-10 Aortic root size;
BLCA cis rs4665809 0.59 rs4665840 chr2:26444962 C/T cg04944784 chr2:26401820 FAM59B -0.85 -12.76 -0.55 2.9E-31 Gut microbiome composition (summer);
BLCA cis rs4665809 0.589 rs4665841 chr2:26448950 G/A cg26314531 chr2:26401878 FAM59B -0.67 -9.33 -0.43 8.76E-19 Gut microbiome composition (summer);
BLCA cis rs6952808 0.609 rs4721190 chr7:1954732 A/G cg20295408 chr7:1910781 MAD1L1 0.4 6.04 0.3 3.61E-9 Bipolar disorder and schizophrenia;
BLCA cis rs13223928 0.592 rs4722439 chr7:3155858 C/T cg19214707 chr7:3157722 NA 0.59 10.16 0.46 1.28E-21 Eosinophil percentage of white cells;Sum eosinophil basophil counts;Neutrophil percentage of granulocytes;Eosinophil percentage of granulocytes;Eosinophil counts;
BLCA cis rs4727027 1 rs4727027 chr7:148869277 C/T cg23158103 chr7:148848205 ZNF398 -0.55 -12.03 -0.53 1.8E-28 Eosinophil counts;Sum eosinophil basophil counts;Neutrophil percentage of granulocytes;Eosinophil percentage of granulocytes;Eosinophil percentage of white cells;
BLCA cis rs4919694 0.808 rs4918001 chr10:105013147 G/T cg04362960 chr10:104952993 NT5C2 -1.02 -9.69 -0.44 5.64E-20 Arsenic metabolism;
BLCA cis rs11190604 1 rs4919471 chr10:102299239 A/G cg07080220 chr10:102295463 HIF1AN 0.67 8.48 0.4 5.13E-16 Palmitoleic acid (16:1n-7) levels;
BLCA cis rs17739167 0.55 rs4924589 chr15:42229632 C/T cg20935245 chr15:42234343 EHD4 0.44 7.45 0.36 6.3E-13 Monocyte count;
BLCA cis rs13118159 0.573 rs4974618 chr4:1373663 C/T cg20887711 chr4:1340912 KIAA1530 0.86 15.44 0.62 4.43E-42 Longevity;
BLCA cis rs8005677 0.798 rs4982713 chr14:23404102 C/T cg01529538 chr14:23388837 RBM23 0.48 7.92 0.38 2.69E-14 Cognitive ability (multi-trait analysis);
BLCA cis rs28386778 0.897 rs5020097 chr17:61814198 G/C cg01411255 chr17:61851458 DDX42;CCDC47 0.61 8.96 0.42 1.52E-17 Prudent dietary pattern;
BLCA cis rs5750830 0.594 rs5757650 chr22:39778419 A/G cg02038168 chr22:39784481 NA -0.38 -6.42 -0.31 4.06E-10 Intelligence (multi-trait analysis);