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 rs9911578 0.741 rs2611776 chr17:56819636 G/T cg12560992 chr17:57184187 TRIM37 0.9 15.99 0.63 2.19E-44 Intelligence (multi-trait analysis);
BLCA cis rs425277 1 rs262651 chr1:2091397 A/G cg03732007 chr1:2071316 PRKCZ 0.34 6.14 0.3 2.04E-9 Height;
BLCA cis rs801193 0.569 rs2659907 chr7:66164032 G/A cg18876405 chr7:65276391 NA 0.47 7.72 0.37 1.04E-13 Aortic root size;
BLCA cis rs28386778 0.865 rs2727276 chr17:61929709 G/A cg06873352 chr17:61820015 STRADA 0.62 12.46 0.54 4.02E-30 Prudent dietary pattern;
BLCA cis rs3008870 0.628 rs2755257 chr1:67515309 C/T cg08660285 chr1:67390436 MIER1;WDR78 0.49 7.41 0.36 8.42E-13 Lymphocyte percentage of white cells;
BLCA cis rs4555082 0.83 rs2816648 chr14:105708289 C/T cg10792982 chr14:105748885 BRF1 0.4 7.37 0.35 1.08E-12 Mean platelet volume;Platelet distribution width;
BLCA cis rs35110281 0.776 rs2838338 chr21:45075582 T/C cg21573476 chr21:45109991 RRP1B -0.38 -6.03 -0.3 3.79E-9 Mean corpuscular volume;
BLCA cis rs4819052 0.851 rs2838850 chr21:46671445 G/C cg11663144 chr21:46675770 NA -0.39 -7.01 -0.34 1.11E-11 Coronary artery calcified atherosclerotic plaque (90 or 130 HU threshold) in type 2 diabetes;
BLCA cis rs2839186 0.967 rs2839191 chr21:47695395 C/G cg05896524 chr21:47604654 C21orf56 0.43 6.63 0.32 1.12E-10 Testicular germ cell tumor;
BLCA cis rs12586317 0.62 rs28404080 chr14:35539418 G/T cg05294307 chr14:35346193 BAZ1A -0.64 -7.72 -0.37 1.05E-13 Psoriasis;
BLCA cis rs6977660 0.714 rs28605851 chr7:19815219 G/A cg07541023 chr7:19748670 TWISTNB 0.64 7.65 0.37 1.7E-13 Thyroid stimulating hormone;
BLCA cis rs9916302 0.605 rs2879258 chr17:37399379 G/T cg00129232 chr17:37814104 STARD3 -0.5 -6.43 -0.31 3.77E-10 Glomerular filtration rate (creatinine);
BLCA cis rs9611565 0.512 rs2899347 chr22:42158204 T/C cg06481639 chr22:41940642 POLR3H 0.55 7.29 0.35 1.81E-12 Vitiligo;
BLCA cis rs2806561 0.929 rs2903545 chr1:23541108 C/T cg19743168 chr1:23544995 NA -0.32 -6.84 -0.33 3.18E-11 Height;
BLCA cis rs244731 0.959 rs3105419 chr5:176551396 G/C cg16006841 chr5:176797999 RGS14 0.53 7.09 0.34 6.67E-12 Urate levels in lean individuals;