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 rs17711722 0.522 rs6957759 chr7:65271785 A/G cg05627663 chr7:65219948 SNORA22;CCT6P1 0.46 8.48 0.4 5.24E-16 Calcium levels;
BLCA cis rs875971 1 rs6979382 chr7:65886375 C/T cg11764359 chr7:65958608 NA 0.75 14.4 0.59 7.71E-38 Aortic root size;
BLCA cis rs10504229 0.906 rs7003276 chr8:58173089 A/T cg21724239 chr8:58056113 NA 0.48 6.68 0.32 8.44E-11 Developmental language disorder (linguistic errors);
BLCA cis rs1790761 0.52 rs7124513 chr11:67395714 C/T cg00864171 chr11:67383662 NA -0.37 -6.26 -0.31 1.07E-9 Mean corpuscular volume;
BLCA cis rs72781680 0.679 rs718138 chr2:23976324 G/A cg08917208 chr2:24149416 ATAD2B 0.67 9.01 0.42 1.01E-17 Lymphocyte counts;
BLCA cis rs2302190 1 rs7207286 chr17:56514458 A/C cg12560992 chr17:57184187 TRIM37 -0.55 -7.35 -0.35 1.25E-12 Vitamin D levels;
BLCA cis rs72781680 0.611 rs72797824 chr2:24356456 T/G cg08917208 chr2:24149416 ATAD2B 0.59 7.31 0.35 1.64E-12 Lymphocyte counts;
BLCA cis rs728616 0.558 rs72817596 chr10:82151594 T/C cg00277334 chr10:82204260 NA 0.53 6.13 0.3 2.16E-9 Chronic obstructive pulmonary disease-related biomarkers;
BLCA cis rs2836974 0.568 rs7282604 chr21:40536910 C/T cg11890956 chr21:40555474 PSMG1 -0.81 -14.14 -0.59 8.92E-37 Cognitive function;
BLCA cis rs1023500 1 rs7293091 chr22:42341308 A/G cg04733989 chr22:42467013 NAGA -0.54 -6.7 -0.32 7.74E-11 Schizophrenia;
BLCA cis rs9581857 0.547 rs7336332 chr13:28058404 A/G cg22138327 chr13:27999177 GTF3A 0.65 7.47 0.36 5.43E-13 Psychosis proneness (hypomanic personality scale and perceptual aberration scale);
BLCA cis rs4304924 0.5 rs7339081 chr13:79235501 A/G cg07926092 chr13:79233506 RNF219 0.47 6.37 0.31 5.39E-10 Large artery stroke;
BLCA cis rs2279817 0.818 rs74061959 chr1:18016162 G/A cg21791023 chr1:18019539 ARHGEF10L -0.51 -8.52 -0.4 3.85E-16 Neuroticism;
BLCA cis rs1707322 0.964 rs7512395 chr1:46361177 G/A cg03146154 chr1:46216737 IPP 0.45 6.55 0.32 1.84E-10 Body mass index in physically active individuals;Body mass index;Body mass index (joint analysis main effects and physical activity interaction);
BLCA cis rs951366 0.649 rs7522056 chr1:205735891 A/G cg11965913 chr1:205819406 PM20D1 0.45 7.61 0.36 2.21E-13 Menarche (age at onset);