GWAS-related eQTLs across different cancer types
We identified 337,131 eQTLs that overlap with GWAS linkage disequilibrium (LD) regions (r² ≥ 0.5).
|
Cancer type
|
eQTL type
|
tagSNP
|
Gene position (hg19)
|
p-value
|
|||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| BRCA | cis | rs10205487 | 1 | rs10496174 | chr2:70153436 | ANXA4 | chr2:69969127-70053594:+ | -0.13 | -3.8 | 0.000155 | Carotid plaque burden (smoking interaction) |
| BRCA | cis | rs17401966 | 1 | rs1049887 | chr1:10460485 | PGD | chr1:10459085-10480200:+ | 0.24 | 6.43 | 1.91E-10 | Hepatocellular carcinoma |
| BRCA | cis | rs1577917 | 1 | rs10498958 | chr6:86649705 | SNHG5 | chr6:86386726-86388451:- | 0.61 | 18.78 | 3.44E-68 | Response to antipsychotic treatment |
| BRCA | cis | rs11174436 | 1 | rs10506440 | chr12:62707586 | FAM19A2 | chr12:62102043-62653925:- | 0.17 | 3.63 | 0.000301 | Pyoderma gangrenosum in inflammatory bowel disease |
| BRCA | cis | rs3781264 | 1 | rs10509671 | chr10:96069054 | NOC3L | chr10:96092989-96122683:- | 0.13 | 4.24 | 2.44E-5 | Esophageal cancer and gastric cancer |
| BRCA | cis | rs6583954 | 1 | rs10509676 | chr10:96523045 | HELLS | chr10:96305543-96361855:+ | 0.12 | 3.51 | 0.000463 | Migraine |
| BRCA | cis | rs1853207 | 1 | rs10509677 | chr10:96576110 | C10orf129 | chr10:96953957-96988685:+ | 0.33 | 5.42 | 7.32E-8 | Blood metabolite levels |
| BRCA | cis | rs1853207 | 1 | rs10509678 | chr10:96576190 | C10orf129 | chr10:96953957-96988685:+ | 0.33 | 5.42 | 7.32E-8 | Blood metabolite levels |
| BRCA | cis | rs11190604 | 1 | rs10509744 | chr10:102271579 | SEC31B | chr10:102246403-102289636:- | -0.31 | -11.57 | 3.15E-29 | Palmitoleic acid (16:1n-7) plasma levels |
| BRCA | cis | rs7078160 | 1 | rs10510026 | chr10:118862420 | KIAA1598 | chr10:118644308-118886097:- | 0.14 | 3.53 | 0.000432 | Nonsyndromic cleft lip with or without cleft palate;Orofacial clefts |
| BRCA | cis | rs3796352 | 1 | rs10510761 | chr3:52965255 | NT5DC2 | chr3:52558386-52569093:- | 0.16 | 3.67 | 0.000258 | Immune reponse to smallpox (secreted IL-2) |
| BRCA | cis | rs3796352 | 1 | rs10510761 | chr3:52965255 | RFT1 | chr3:53122503-53164470:- | -0.24 | -3.64 | 0.000289 | Immune reponse to smallpox (secreted IL-2) |
| BRCA | cis | rs3796352 | 1 | rs10510761 | chr3:52965255 | TMEM110 | chr3:52867139-52931547:- | -0.24 | -3.94 | 8.75E-5 | Immune reponse to smallpox (secreted IL-2) |
| BRCA | cis | rs7637230 | 1 | rs10511191 | chr3:101645852 | LOC152225 | chr3:101659703-101716770:+ | -0.15 | -3.61 | 0.000317 | Psoriasis vulgaris;Psoriasis |
| BRCA | cis | rs59374417 | 1 | rs10511393 | chr3:119290051 | CD80 | chr3:119243142-119278481:- | -0.12 | -4.19 | 2.99E-5 | Vitiligo |