From: In silico pathway analysis and tissue specific cis-eQTL for colorectal cancer GWAS risk variants
SNPs | Risk Allele | Locus | Gene(s) | Genomic position | p-value | OR [95%CI] | Reference |
---|---|---|---|---|---|---|---|
rs10911251 | A | 1q25.3 | LAMC1 | Intron | 2 × 10−8 | 1.09 [1.06–1.12] | |
rs6691170 | T | 1q41 | DUSP10 - HHIPL2 | Intergenic | 1 × 10−9; 9.6 × 10−10 | 1.06 [1.03–1.09]; 1.06 [1.03–1.09] | |
rs6687758 | G | 1q41 | DUSP10 - HHIPL2 | Intergenic | 2 × 10−9; 2.3 × 10−9 | 1.09 [1.06–1.12]; 1.09 [1.06–1.12] | |
rs11903757 | C | 2q32.3 | NABP1-SDPR | Intergenic | 4 × 10−8 | 1.16 [1.10–1.22] | [45] |
rs35360328 | A/T | 3p22.1 | ZNF621-CTNNB1 | Intergenic | 3.1 × 10−9 | 1.14 [1.09–1.19] | [49] |
rs812481 | G/C | 3p14.1 | LRIG1 | Intron | 2 × 10−8 | 1.09 [1.05–1.11] | [49] |
rs10936599 | C | 3q26.2 | MYNN | Synonymous | 3 × 10−8; 3.4 × 10−8 | 1.04 [1.04–1.10]; 0.93 [0.91–0.96] | |
rs35509282 | A | 4q32.2 | FSTL5 - NAF1 | Intergenic | 8.2 × 10−9 | 1.53 [NR] | [51] |
rs367615 | ? | 5q21.3 | PJA2-MAN2A1 | Intergenic | 4 × 10−8 | 1.35 [1.20–1.49] | [52] |
rs647161 | A | 5q31.1 | C5orf66 | Intron | 1 × 10−10; 4 × 10−10 (East Asian); 1.2 × 10−10 | 1.11 [1.08–1.15]; 1.17 [1.11–1.22] (East Asian) ; 1.11 [1.08–1.15] | |
rs1321311 | A | 6p21.2 | SRSF3-CDKN1A | Intergenic | 1 × 10−10; 1.1 × 10−10 | 1.10 [1.07–1.13]; 1.10 [1.07–1.13] | |
rs7758229 | T | 6q25.3 | SLC22A3 | Intron | 8 × 10−9; 7.9 × 10−9 | 1.28 [1.18–1.39]; 1.28 [1.18–1.39] | |
rs16892766 | A | 8q23.3 | TRPS1-EIF3H | Intergenic | 3 × 10−18; 3.3 × 10−18 | 1.27 [1.20–1.34]; 1.25 [1.19–1.32] | |
rs140355816 | G | 8q23.3 | TRPS1-EIF3H | Intergenic | 2 × 10−8 | 1.59 [NR] | [46] |
rs10505477 | A | 8q24.21 | FAM84B-POU5F1B | Intron | 3.2 × 10−11 | 1.17 [1.12–1.23] | |
rs6983267 | G | 8q24.21 | FAM84B - POU5F1B | ncRNA;intron | 1 × 10−11; 7 × 10−11; 1 × 10−14 | 1.13 [1.09–1.18]; 1.24 [1.17–1.33]; 1.27 I[1.16–1.39] | |
rs7014346 | A | 8q24.21 | FAM84B - POU5F1B | Intron | 8.6 × 10−26 | 1.19 [1.14–1.24] | |
rs10795668 | A | 10p14 | GATA3-CELF2 | Intergenic | 3 × 10−13; 2.5 × 10−13 | 1.12 [1.10–1.16]; 0.89 [0.86–0.91] | |
rs11255841 | T | 10p14 | GATA3-CELF2 | Intergenic | 7 × 10−11 | 1.19 [NR} | [46] |
rs704017 | G | 10q22.3 | RPS24-ZMIZ1 | Intergenic | 2 × 10−8 | 1.10 [1.06–1.13] | [22] |
rs11190164 | G/A | 10q24.2 | NKX2-3-SLC25A28 | Intergenic | 4.0 × 10−8 | 1.09 [1.06–1.12] | [49] |
rs1035209 | T | 10q24.2 | NKX2-3-SLC25A28 | Intergenic | 5 × 10−11 | 1.12 [1.08–1.16] | [46] |
rs12241008 | C | 10q25 | VTI1A | Intron | 1.4 × 10−9 | 1.13 [1.09–1.18] | [60] |
rs11196172 | A | 10q25.2 | TCF7L2 | Intron | 1 × 10−12 | 1.14 [1.10–1.18] | [22] |
rs3824999 | C | 11q13.4 | POLD3 | Intron | 4 × 10−10; 3.7 × 10−10 | 1.08 [1.05–1.10]; 0.93 [0.91–0.95] | |
rs3802842 | C | 11q23.1 | COLCA2 - COLCA1 | Intron | 5.8 × 10−10 | 1.11 [1.08–1.15] | |
rs174537 | G | 11q12.2 | MYRF | Intron | 9 × 10−21 | 1.16 [1.12–1.19] | [22] |
rs1535 | A | 11q12.2 | FADS2 | Intron | 8 × 10−20 | 1.09 [1.04–1.13] | [22] |
rs10774214 | T | 12p13.32 | PARP11 - CCND2 | Intergenic | 3 × 10−8; 5 × 10−10 | 1.09 [1.06–1.13]; 1.17 [1.11–1.23] | |
rs7136702 | T | 12q13.13 | LARP4 - DIP2 | Intergenic | 4.0 × 10−8 | 1.06 [1.04–1.08] | |
rs10849432 | T | 12p13.31 | CD9- PLEKHG6 | Intergenic | 6 × 10−10 | 1.14 [1.09–1.18] | [22] |
rs34245511 | C | 12q13.12 | LIMA1 | Intron | 3 × 10−8 | 1.14 [NR} | [46] |
rs11169552 | C | 12q13.12 | DIP2B - ATF1 | Intergenic | 2 × 10−10; 1.9 × 10−10 | 1.09 [1.05–1.11]; 0.92 [0.90–0.95] | |
rs3217810 | T | 12p13.32 | CCND2 | Intron | 2 × 10−10 | 1.10 [1.06–1.14] | |
rs10774214 | T | 12p13.32 | CCND2 | Intron | 5 × 10−10 | 1.17 [1.11–1.23] | [53] |
rs3184504 | C | 12q24.12 | SH2B3 | Missense | 1.7 × 10−8 | 1.09 [1.06–1.12] | [49] |
rs73208120 | G | 12q24.22 | NOS1 | Intron | 2.8 × 10−8 | 1.16 [1.11–1.23] | [49] |
rs4444235 | C | 14q22.2 | DDHD1 - BMP4 | Intergenic | 8 × 10−10 | 1.11 [1.08–1.15] | |
rs1957636 | A | 14q22.2 | BMP4 - CDKN3 | Intergenic | 1 × 10−9 | 1.08 [1.06–1.11] | [62] |
rs17094983 | A | 14q23.1 | DACT1 - PRL31P4 | Intergenic | 2.5 × 10−10 | 0.87 [0.83–0.91] | [63] |
rs4779584 | T | 15q13.3 | SCG5 - GREM1 | Intergenic | 2 × 10−8; 4.4 × 10 − 14 | 1.18 [1.11–1.24]; 1.26 [1.19–1.34] | |
rs73376930 | G | 15q13.3 | GREM1 | Intron | 1.0 10−11 | 1.246 [NR] | [46] |
rs9929218 | G | 16q22.1 | CDH1 | Intron | 1 × 10−8; 1.2 × 10−8 | 1.10 [1.06–1.12]; 0.91 [0.89–0.94] | |
rs12603526 | C | 17p13.3 | NXN | Intron | 3 × 10−8 | 1.10 [1.06–1.14] | [22] |
rs7229639 | A | 18q21.1 | SMAD7 | Intron | 2 × 10−8 | 1.20 [1.16–1.25] | [22] |
rs4939827 | T | 18q21.1 | SMAD7 | Intron | 2 × 10−10; 8 × 10−28; 1 × 10−12; 1 × 10−12 | 1.12 [1.09–1.16]; 1.20 [1.16–1.24]; 1.16 [1.09–1.27] ; 0.85 [0.81–0.89] | |
rs10411210 | C | 19q13.11 | RHPN2 | Intron | 5 × 10−9; 4.6 × 10−9 | 1.15 [1.10–1.20]; 0.87 [0.83–0.91] | |
rs1800469 | G | 19q13.2 | TGFB1- B9D2 | Intergenic | 1 × 10−8 | 1.09 [1.06–1.12] | [22] |
rs961253 | A | 20p12.3 | FERMT1 - BMP2 | Intergenic | 2 × 10−10 | 1.12 [1.08–1.16] | |
rs2423279 | C | 20p12.3 | BMP2 - HAO1 | Intergenic | 6.64 × 10−9 | 1.10 [1.06–1.14] | |
rs4813802 | G | 20p12.3 | CASC20 - BMP2 | Intergenic | 7 × 10-11 | 1.10 [1.06–1.12] | |
rs6066825 | G | 20q13.1 | PREX1 | Intron | 4.41 × 10−9 | 1.09 [1.06–1.12] | [49] |
rs4925386 | C | 20q13.33 | LAMA5 | Intron | 2 × 10−10; 1.9 × 10−10 | 1.08 [1.05–1.10]; 0.93 [0.91–0.95] | |
rs2427308 | C | 20q13.33 | CABLES2 | Intron | 3 × 10−11 | 1.24 [NR] | [46] |
rs5934683 | C | Xp22.2 | GPR143 - SHROOM2 | Intergenic | 7.3 × 10−10 | 1.07 [1.04–1.10] |