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 rs644799 1 rs596277 chr11:95566886 G/A cg25478527 chr11:95522999 CEP57;FAM76B 0.47 7.3 0.35 1.73E-12 Intelligence (multi-trait analysis);Cognitive ability (multi-trait analysis);
BLCA cis rs9649213 0.593 rs6465678 chr7:98004057 T/C cg21770322 chr7:97807741 LMTK2 0.4 8.72 0.41 8.78E-17 Prostate cancer (SNP x SNP interaction);
BLCA cis rs7095607 0.606 rs6480312 chr10:69957845 C/T cg18986048 chr10:69913749 MYPN 0.55 10.06 0.46 3.01E-21 Lung function (FVC);
BLCA cis rs9325144 0.555 rs6582607 chr12:38717678 T/C cg13010199 chr12:38710504 ALG10B -0.51 -8.09 -0.38 8.04E-15 Morning vs. evening chronotype;
BLCA cis rs4481887 0.927 rs6587445 chr1:248440915 A/G cg00666640 chr1:248458726 OR2T12 0.26 6.7 0.32 7.68E-11 Common traits (Other);
BLCA cis rs9733 0.596 rs6587516 chr1:150623221 C/T cg09034736 chr1:150693464 HORMAD1 0.48 8.21 0.39 3.37E-15 Tonsillectomy;
BLCA cis rs514406 0.861 rs6588443 chr1:53250650 G/A cg16325326 chr1:53192061 ZYG11B -0.87 -16.54 -0.65 1.18E-46 Monocyte count;
BLCA cis rs1153858 1 rs66939267 chr15:45676902 T/A cg26924012 chr15:45694286 SPATA5L1 0.97 17.33 0.66 5.24E-50 Homoarginine levels;
BLCA cis rs10504229 1 rs67243305 chr8:58174958 G/A cg21724239 chr8:58056113 NA 0.45 6.04 0.3 3.59E-9 Developmental language disorder (linguistic errors);
BLCA cis rs7577696 0.962 rs6758024 chr2:32294486 G/C cg02381751 chr2:32503542 YIPF4 -0.4 -6.24 -0.3 1.19E-9 Inflammatory biomarkers;
BLCA cis rs743757 0.878 rs6786523 chr3:50524221 A/G cg08207895 chr3:50388901 TUSC4;CYB561D2 -0.39 -6.8 -0.33 4.17E-11 Diastolic blood pressure;
BLCA cis rs1401999 0.628 rs6798870 chr3:183740350 G/A cg01324343 chr3:183735012 ABCC5 0.72 15.36 0.62 9.49E-42 Anterior chamber depth;
BLCA cis rs1552244 0.882 rs68080705 chr3:10025743 C/T cg08888203 chr3:10149979 C3orf24 0.5 7.93 0.38 2.45E-14 Alzheimer's disease;
BLCA cis rs4689592 0.587 rs6825954 chr4:7074226 T/C cg02503808 chr4:7069936 GRPEL1 0.85 11.56 0.51 1.04E-26 Monocyte percentage of white cells;
BLCA cis rs6594713 0.756 rs6872490 chr5:112784592 T/C cg12552261 chr5:112820674 MCC 0.46 6.63 0.32 1.14E-10 Brain cytoarchitecture;