Table 2 Associations between biogenesis genes and cancer risk for those SNPs that had a raw p-value of <0.05
| Â | Controls | Cases | Â | ||||||
|---|---|---|---|---|---|---|---|---|---|
N | % | N | % | OR | (95Â % CI) | P-valuea,b | P Holmb | VEP Prediction | |
AGO2 (rs6985156) | |||||||||
 GG | 912 | 77.7 | 858 | 77.0 | 1.00 |  | 0.030 | 0.395 |  |
 GA | 250 | 21.3 | 230 | 20.6 | 0.98 | (0.80, 1.20) |  |  |  |
 AA | 11 | 0.9 | 27 | 2.4 | 2.59 | (1.27, 5.26) |  |  |  |
 GG/GA vs. AA | 11 | 0.9 | 27 | 2.4 | 2.6 | (1.28, 5.28) |  |  | Modifier |
AGO2 (rs7843258) | |||||||||
 CC | 810 | 69.1 | 779 | 69.9 | 1.00 |  | 0.031 | 0.395 |  |
 CT | 342 | 29.2 | 298 | 26.7 | 0.90 | (0.75, 1.08) |  |  |  |
 TT | 21 | 1.8 | 38 | 3.4 | 1.87 | (1.09, 3.23) |  |  |  |
 CC/CT vs.TT | 21 | 1.8 | 38 | 3.4 | 1.93 | (1.12, 3.32) |  |  | Modifier |
AGO2 (rs2176397) | |||||||||
 CC | 567 | 48.3 | 568 | 50.9 | 1.00 |  | 0.019 | 0.273 |  |
 CT | 517 | 44.1 | 435 | 39.0 | 0.85 | (0.71, 1.01) |  |  |  |
 TT | 89 | 7.6 | 112 | 10.0 | 1.26 | (0.93, 1.71) |  |  |  |
 CC/CT vs. TT | 89 | 7.6 | 112 | 10 | 1.36 | (1.02, 1.83) |  |  | Modifier |
AGO2 (rs4961278) | |||||||||
 AA | 605 | 51.6 | 578 | 51.8 | 1.00 |  | 0.032 | 0.395 |  |
 AG | 501 | 42.7 | 444 | 39.8 | 0.92 | (0.78, 1.09) |  |  |  |
 GG | 67 | 5.7 | 93 | 8.3 | 1.45 | (1.04, 2.03) |  |  |  |
 AA/AG vs. GG | 67 | 5.7 | 93 | 8.3 | 1.51 | (1.09, 2.09) |  |  | Modifier |
BMP2 (rs3178250) | |||||||||
 TT | 747 | 63.7 | 663 | 59.5 | 1.00 |  | 0.014 | 0.040 |  |
 TC | 371 | 31.6 | 415 | 37.2 | 1.24 | (1.04, 1.48) |  |  |  |
 CC | 55 | 4.7 | 37 | 3.3 | 0.75 | (0.49, 1.16) |  |  |  |
 TT vs.TC/CC | 426 | 36.3 | 452 | 40.5 | 1.18 | (0.99, 1.40) |  |  | Modifier |
DGCR8 (rs11089328) | |||||||||
 AA | 400 | 34.1 | 432 | 38.7 | 1.00 |  | 0.009 | 0.066 |  |
 AG | 586 | 50.0 | 491 | 44.0 | 0.76 | (0.63, 0.91) |  |  |  |
 GG | 187 | 15.9 | 192 | 17.2 | 0.94 | (0.74, 1.20) |  |  |  |
 AA vs. AG/GG | 773 | 65.9 | 683 | 61.3 | 0.80 | (0.68, 0.96) |  |  | Modifier |
DROSHA (rs2287584) | |||||||||
 TT | 743 | 63.3 | 742 | 66.5 | 1.00 |  | 0.032 | 0.384 |  |
 TC | 394 | 33.6 | 325 | 29.1 | 0.82 | (0.69, 0.99) |  |  |  |
 CC | 36 | 3.1 | 48 | 4.3 | 1.33 | (0.85, 2.08) |  |  |  |
 TT/TC vs. CC | 36 | 3.1 | 48 | 4.3 | 1.42 | (0.91, 2.20) |  |  | Low |
DROSHA (rs17410035) | |||||||||
 GG | 552 | 47.1 | 468 | 42.0 | 1.00 |  | 0.014 | 0.181 |  |
 GT | 473 | 40.3 | 518 | 46.5 | 1.29 | (1.08, 1.53) |  |  |  |
 TT | 148 | 12.6 | 129 | 11.6 | 1.01 | (0.77, 1.32) |  |  |  |
 GG vs. GT/TT | 621 | 52.9 | 647 | 58.0 | 1.22 | (1.03, 1.44) |  |  | Modifierc |
GEMIN4 (rs2740348) | |||||||||
 CC | 782 | 66.7 | 798 | 71.6 | 1.00 |  | 0.048 | 0.241 |  |
 CG | 352 | 30.0 | 286 | 25.7 | 0.80 | (0.67, 0.96) |  |  |  |
 GG | 39 | 3.3 | 31 | 2.8 | 0.78 | (0.48, 1.27) |  |  |  |
 CC vs. CG/GG | 391 | 33.3 | 317 | 28.4 | 0.80 | (0.67, 0.96) |  |  | Moderate |
MAPKAPK2 (rs4548444) | |||||||||
 AA | 713 | 60.8 | 686 | 61.5 | 1.00 |  | 0.021 | 0.041 |  |
 AG | 417 | 35.5 | 363 | 32.6 | 0.91 | (0.76, 1.08) |  |  |  |
 GG | 43 | 3.7 | 66 | 5.9 | 1.61 | (1.08, 2.40) |  |  |  |
 AA/AG vs. GG | 43 | 3.7 | 66 | 5.9 | 1.67 | (1.12, 2.48) |  |  | Modifier |
PRKRA (rs10207436) | |||||||||
 AA | 616 | 52.5 | 655 | 58.7 | 1.00 |  | 0.013 | 0.026 |  |
 AG | 480 | 40.9 | 400 | 35.9 | 0.78 | (0.66, 0.93) |  |  |  |
 GG | 77 | 6.6 | 60 | 5.4 | 0.75 | (0.52, 1.07) |  |  |  |
 AA vs. AG/GG | 557 | 47.5 | 460 | 41.3 | 0.78 | (0.66, 0.92) |  |  | Modifier |