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 rs736408 0.812 rs9324 chr3:52825585 T/C cg15147215 chr3:52552868 STAB1 -0.34 -6.44 -0.31 3.62E-10 Bipolar disorder;
BLCA cis rs9487051 0.872 rs9487032 chr6:109605323 G/T cg12927641 chr6:109611667 NA -0.34 -6.99 -0.34 1.23E-11 Reticulocyte fraction of red cells;
BLCA cis rs9549367 0.737 rs9549712 chr13:113902355 G/A cg00898013 chr13:113819073 PROZ -0.38 -6.15 -0.3 1.95E-9 Platelet distribution width;
BLCA cis rs1799949 0.965 rs9897425 chr17:41430179 C/G cg19454999 chr17:41278357 BRCA1;NBR2 0.55 9.63 0.44 8.87E-20 Menopause (age at onset);
BLCA cis rs6076065 0.748 rs999068 chr20:23376483 G/A cg11657817 chr20:23433608 CST11 0.32 6.9 0.33 2.18E-11 Facial morphology (factor 15, philtrum width);
BLCA cis rs11098499 0.754 rs9991959 chr4:120253773 C/T cg24375607 chr4:120327624 NA -0.53 -9.37 -0.43 6.42E-19 Corneal astigmatism;
BLCA trans rs7613875 0.6 rs1061474 chr3:50144951 T/C cg21659725 chr3:3221576 CRBN -0.55 -8.8 -0.41 4.85E-17 Body mass index;
BLCA trans rs61931739 0.534 rs11052974 chr12:34029877 T/G cg13010199 chr12:38710504 ALG10B 0.52 8.36 0.39 1.19E-15 Morning vs. evening chronotype;
BLCA trans rs877282 0.898 rs11253353 chr10:766862 C/A cg13042288 chr15:90349979 ANPEP -0.5 -6.56 -0.32 1.77E-10 Uric acid levels;
BLCA trans rs72820985 0.542 rs11645677 chr16:80834612 A/G cg07185038 chr12:58165658 FAM119B;METTL1 0.41 6.18 0.3 1.66E-9 Breast cancer;
BLCA trans rs72820985 0.542 rs11645677 chr16:80834612 A/G cg16353345 chr18:55289325 NARS 0.41 6.5 0.32 2.57E-10 Breast cancer;
BLCA trans rs72820985 0.542 rs11645677 chr16:80834612 A/G cg27653394 chr10:102758893 LZTS2 0.4 6.17 0.3 1.77E-9 Breast cancer;
BLCA trans rs6427356 1 rs1176555 chr1:157136541 C/G cg06742800 chr2:27255708 TMEM214 -0.54 -7.74 -0.37 9.37E-14 Attention deficit hyperactivity disorder and conduct disorder;
BLCA trans rs6427356 1 rs1176555 chr1:157136541 C/G cg13323097 chr1:205649211 SLC45A3 -0.45 -6.29 -0.31 8.77E-10 Attention deficit hyperactivity disorder and conduct disorder;
BLCA trans rs11997175 0.846 rs11776207 chr8:33765126 G/T cg06748231 chr5:1112251 SLC12A7 -0.39 -6.27 -0.31 9.95E-10 Body mass index;