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 rs6964587 0.626 rs34404183 chr7:91551249 T/C cg17063962 chr7:91808500 NA -0.54 -9.36 -0.43 7.05E-19 Breast cancer;
BLCA cis rs2297440 0.53 rs34533955 chr20:62233020 A/C cg16989086 chr20:62203971 PRIC285 0.53 7.72 0.37 1.01E-13 Glioma;Non-glioblastoma glioma;Glioblastoma;
BLCA cis rs6502050 0.835 rs35038106 chr17:80180346 C/T cg23985595 chr17:80112537 CCDC57 -0.35 -6.78 -0.33 4.56E-11 Life satisfaction;
BLCA cis rs12908161 1 rs35524990 chr15:85258203 T/C cg03959625 chr15:84868606 LOC388152 0.34 6.07 0.3 3.08E-9 Schizophrenia;
BLCA cis rs4330281 0.57 rs35642812 chr3:17741409 C/G cg20981856 chr3:17787350 NA 0.3 6.44 0.31 3.59E-10 Schizophrenia;
BLCA cis rs17711722 0.727 rs35850374 chr7:65357776 A/G cg18252515 chr7:66147081 NA -0.42 -6.25 -0.31 1.08E-9 Calcium levels;
BLCA cis rs13191362 0.935 rs35942036 chr6:163163297 C/T cg14584255 chr6:163149320 PACRG;PARK2 0.61 7.4 0.36 8.65E-13 Body mass index;BMI in non-smokers;Body mass index (joint analysis main effects and physical activity interaction);BMI (adjusted for smoking behaviour);Body mass index in physically active individuals
BLCA cis rs1552244 0.882 rs3755783 chr3:10029289 A/G cg00166722 chr3:10149974 C3orf24 0.43 6.5 0.32 2.57E-10 Alzheimer's disease;
BLCA cis rs11864453 0.713 rs3764312 chr16:72125733 A/C cg16558253 chr16:72132732 DHX38 -0.42 -6.87 -0.33 2.6E-11 Fibrinogen levels;
BLCA cis rs75804782 0.641 rs3769124 chr2:239349362 G/A cg18131467 chr2:239335373 ASB1 -0.73 -7.67 -0.37 1.42E-13 Morning vs. evening chronotype;Chronotype;
BLCA cis rs9649213 0.593 rs3801256 chr7:97992095 C/G cg21770322 chr7:97807741 LMTK2 0.4 8.77 0.41 6.11E-17 Prostate cancer (SNP x SNP interaction);
BLCA cis rs4925386 0.625 rs3810550 chr20:60912117 C/T cg09594475 chr20:60884601 LAMA5 0.48 7.88 0.37 3.42E-14 Colorectal cancer;Colorectal cancer (SNP x SNP interaction);
BLCA cis rs9649213 0.593 rs3823740 chr7:97957104 T/G cg21770322 chr7:97807741 LMTK2 0.41 9.18 0.43 2.87E-18 Prostate cancer (SNP x SNP interaction);
BLCA cis rs6570726 0.902 rs406979 chr6:145838983 G/T cg05347473 chr6:146136440 FBXO30 0.52 8.83 0.41 4.02E-17 Lobe attachment (rater-scored or self-reported);
BLCA cis rs7149337 1 rs4261445 chr14:51723540 G/A cg23942311 chr14:51606299 NA 0.49 10.79 0.48 7.34E-24 Cancer;