Table 2.
Associations between SNPs in DNA repair genes and prostate cancer risk, by race
| Caucasians | African-American | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Cases | Controls | Cases | Controls | |||||||||||||
| Gene | SNP | Genotype | N | % | N | % | OR† | 95% CI | Permuted P* | N | % | N | % | OR† | 95% CI | Permuted P* |
| APEX1 | rs1320150 | AA | 424 | 33.5 | 415 | 33.4 | 1.00 | - | 0.42 | 57 | 40.1 | 37 | 46.8 | 1.00 | - | 0.84 |
| AG | 612 | 48.4 | 615 | 49.5 | 0.97 | 0.82–1.16 | 65 | 45.8 | 33 | 41.8 | 1.43 | 0.77–2.66 | ||||
| GG | 229 | 18.1 | 212 | 17.1 | 1.06 | 0.84–1.33 | 20 | 14.1 | 9 | 11.4 | 1.48 | 0.58–3.79 | ||||
| AG + GG | 841 | 66.5 | 827 | 66.6 | 1.00 | 0.84–1.18 | 85 | 59.9 | 42 | 53.2 | 1.44 | 0.80–2.59 | ||||
| APEX1 | rs2275007 | GG | 420 | 33.4 | 415 | 33.5 | 1.00 | - | 0.79 | 61 | 43.0 | 37 | 46.8 | 1.00 | - | 0.53 |
| AG | 608 | 48.3 | 614 | 49.5 | 0.98 | 0.82–1.17 | 62 | 43.7 | 31 | 39.2 | 1.40 | 0.75–2.62 | ||||
| AA | 230 | 18.3 | 211 | 17.0 | 1.08 | 0.85–1.36 | 19 | 13.4 | 11 | 13.9 | 1.08 | 0.44–2.65 | ||||
| AG + AA | 838 | 66.6 | 825 | 66.5 | 1.01 | 0.85–1.19 | 81 | 57.0 | 42 | 53.2 | 1.32 | 0.73–2.36 | ||||
| BRCA2 | rs144848 | TT | 655 | 51.6 | 654 | 52.6 | 1.00 | - | 0.52 | 104 | 73.2 | 59 | 74.7 | 1.00 | - | 0.36 |
| GT | 498 | 39.4 | 500 | 40.2 | 0.99 | 0.84–1.17 | 36 | 25.4 | 18 | 22.8 | 0.98 | 0.49–1.95 | ||||
| GG | 116 | 9.1 | 89 | 7.2 | 1.30 | 0.98–1.75 | 2 | 1.4 | 2 | 2.5 | 0.48 | 0.06–3.85 | ||||
| GT + GG | 614 | 48.5 | 589 | 47.4 | 1.04 | 0.89–1.22 | 38 | 26.8 | 20 | 25.3 | 0.93 | 0.48–1.81 | ||||
| BRCA2 | rs15869 | AA | 770 | 60.8 | 787 | 63.3 | 1.00 | - | 0.59 | 136 | 95.1 | 71 | 89.9 | 1.00 | - | 0.90 |
| AC | 439 | 34.7 | 398 | 32.0 | 1.13 | 0.95–1.33 | 7 | 4.9 | 7 | 8.9 | 0.62 | 0.20–1.91 | ||||
| CC | 57 | 4.5 | 59 | 4.7 | 0.99 | 0.68–1.44 | - | - | 1 | 1.3 | - | - | ||||
| AC + CC | 496 | 39.2 | 457 | 36.7 | 1.11 | 0.94–1.30 | 7 | 4.9 | 8 | 10.1 | 0.53 | 0.18–1.58 | ||||
| BRCA2 | rs1801406 | AA | 635 | 50.5 | 563 | 45.2 | 1.00 | - | 0.22 | 79 | 54.5 | 46 | 58.3 | 1.00 | - | 0.53 |
| AG | 501 | 39.9 | 556 | 44.6 | 0.80 | 0.68–0.94 | 58 | 40.0 | 31 | 39.2 | 1.13 | 0.62–2.06 | ||||
| GG | 121 | 9.6 | 127 | 10.2 | 0.84 | 0.64–1.11 | 8 | 5.5 | 2 | 2.5 | 3.34 | 0.65–17.12 | ||||
| AG + GG | 622 | 49.5 | 683 | 54.8 | 0.81 | 0.69–0.95 | 66 | 45.5 | 33 | 41.7 | 1.25 | 0.70–2.25 | ||||
| BRCA2 | rs543304 | TT | 821 | 65.1 | 839 | 67.6 | 1.00 | - | 0.65 | 98 | 68.5 | 44 | 55.7 | 1.00 | - | 0.72 |
| CT | 399 | 31.6 | 364 | 29.3 | 1.12 | 0.94–1.33 | 42 | 29.4 | 30 | 38.0 | 0.59 | 0.32–1.10 | ||||
| CC | 41 | 3.3 | 38 | 3.1 | 1.11 | 0.70–1.74 | 3 | 2.1 | 5 | 6.3 | 0.27 | 0.06–1.21 | ||||
| CT + CC | 440 | 34.9 | 402 | 32.4 | 1.12 | 0.95–1.32 | 45 | 31.5 | 35 | 44.3 | 0.54 | 0.30–0.99 | ||||
| ERCC2 (XPD) | rs1052555 | CC | 591 | 46.9 | 565 | 45.4 | 1.00 | - | 0.47 | 110 | 76.4 | 60 | 76.0 | 1.00 | - | 0.31 |
| CT | 549 | 43.6 | 535 | 43.0 | 0.98 | 0.83–1.16 | 29 | 20.1 | 17 | 21.5 | 0.82 | 0.40–1.68 | ||||
| TT | 119 | 9.5 | 144 | 11.6 | 0.79 | 0.60–1.03 | 5 | 3.5 | 2 | 2.5 | 1.56 | 0.27–8.86 | ||||
| CT + TT | 668 | 53.1 | 679 | 54.6 | 0.94 | 0.80–1.10 | 34 | 23.6 | 19 | 24.0 | 0.90 | 0.45–1.76 | ||||
| ERCC2 (XPD) | rs13181 | TT | 505 | 41.0 | 480 | 39.1 | 1.00 | - | 0.17 | 87 | 59.6 | 50 | 60.2 | 1.00 | - | 0.41 |
| GT | 575 | 46.6 | 571 | 46.5 | 0.96 | 0.81–1.13 | 48 | 32.9 | 28 | 33.7 | 0.85 | 0.46–1.57 | ||||
| GG | 153 | 12.4 | 177 | 14.4 | 0.82 | 0.64–1.05 | 11 | 7.5 | 5 | 6.0 | 1.19 | 0.37–3.78 | ||||
| GT + GG | 728 | 59.0 | 748 | 60.9 | 0.92 | 0.79–1.09 | 59 | 40.4 | 33 | 39.7 | 0.90 | 0.50–1.61 | ||||
| ERCC2 (XPD) | rs1799793 | GG | 545 | 44.0 | 527 | 43.2 | 1.00 | - | 0.08 | 106 | 73.6 | 65 | 79.3 | 1.00 | - | 0.77 |
| AG | 575 | 46.4 | 528 | 43.2 | 1.05 | 0.89–1.25 | 31 | 21.5 | 15 | 18.3 | 1.28 | 0.62–2.64 | ||||
| AA | 120 | 9.7 | 166 | 13.6 | 0.70 | 0.54–0.91 | 7 | 4.9 | 2 | 2.4 | 2.35 | 0.44–12.43 | ||||
| AG + AA | 695 | 56.1 | 694 | 56.8 | 0.97 | 0.83–1.13 | 38 | 26.4 | 17 | 20.7 | 1.40 | 0.71–2.77 | ||||
| ERCC2 (XPD) | rs238406 | GG | 365 | 29.0 | 383 | 30.9 | 1.00 | - | 0.24 | 112 | 77.8 | 65 | 80.2 | 1.00 | - | 0.14 |
| GT | 636 | 50.4 | 600 | 48.5 | 1.11 | 0.93–1.33 | 29 | 20.1 | 16 | 19.8 | 0.98 | 0.48–2.00 | ||||
| TT | 260 | 20.6 | 255 | 20.6 | 1.07 | 0.86–1.34 | 3 | 2.1 | 0 | 0.0 | - | - | ||||
| GT + TT | 896 | 71.1 | 855 | 69.1 | 1.10 | 0.93–1.31 | 32 | 22.2 | 16 | 19.8 | 1.09 | 0.54–2.20 | ||||
| ERCC4 (XPF) | rs1799801 | TT | 633 | 50.3 | 623 | 50.1 | 1.00 | - | 0.91 | 96 | 66.2 | 55 | 69.6 | 1.00 | - | 0.72 |
| CT | 521 | 41.4 | 521 | 41.9 | 0.98 | 0.84–1.16 | 46 | 31.7 | 23 | 29.1 | 1.27 | 0.67–2.40 | ||||
| CC | 105 | 8.3 | 99 | 8.0 | 1.04 | 0.78–1.40 | 3 | 2.1 | 1 | 1.3 | 3.02 | 0.29–30.9 | ||||
| CT + CC | 626 | 49.7 | 620 | 49.9 | 0.99 | 0.85–1.16 | 49 | 33.8 | 24 | 30.4 | 1.33 | 0.71–2.49 | ||||
| ERCC4 (XPF) | rs1800067 | GG | 1025 | 84.0 | 1012 | 83.0 | 1.00 | - | 0.79 | 136 | 94.4 | 78 | 96.3 | 1.00 | - | 0.59 |
| AG | 183 | 15.0 | 202 | 16.6 | 0.89 | 0.72–1.11 | 8 | 5.6 | 3 | 3.7 | 2.12 | 0.52–8.54 | ||||
| AA | 13 | 1.1 | 5 | 0.4 | 2.58 | 0.92–7.25 | - | - | - | - | - | - | ||||
| AG + AA | 196 | 16.1 | 207 | 17.0 | 0.93 | 0.75–1.16 | ||||||||||
| MGMT | rs12917 | CC | 949 | 75.9 | 916 | 74.1 | 1.00 | - | 0.87 | 106 | 72.1 | 60 | 74.1 | 1.00 | - | 0.68 |
| CT | 269 | 21.5 | 298 | 24.1 | 0.87 | 0.72–1.05 | 35 | 23.8 | 20 | 24.7 | 1.18 | 0.61–2.29 | ||||
| TT | 32 | 2.6 | 23 | 1.9 | 1.34 | 0.78–2.31 | 6 | 4.1 | 1 | 1.2 | 2.75 | 0.30–25.41 | ||||
| CT + TT | 301 | 24.1 | 321 | 26.0 | 0.91 | 0.75–1.09 | 41 | 27.9 | 21 | 25.9 | 1.26 | 0.66–2.40 | ||||
| MGMT | rs2308321 | AA | 926 | 76.7 | 922 | 77.2 | 1.00 | - | 0.50 | 130 | 92.9 | 73 | 91.3 | 1.00 | - | 0.39 |
| AG | 267 | 22.1 | 256 | 21.4 | 1.04 | 0.86–1.26 | 10 | 7.1 | 7 | 8.8 | 0.82 | 0.29–2.32 | ||||
| GG | 14 | 1.2 | 17 | 1.4 | 0.82 | 0.40–1.67 | - | - | - | - | - | - | ||||
| AG + GG | 281 | 23.3 | 273 | 22.8 | 1.02 | 0.85–1.24 | ||||||||||
| MGMT | rs2308327 | AA | 950 | 76.1 | 960 | 77.1 | 1.00 | - | 0.75 | 134 | 92.4 | 75 | 90.4 | 1.00 | - | 0.31 |
| AG | 276 | 22.1 | 266 | 21.4 | 1.05 | 0.87–1.27 | 11 | 7.6 | 8 | 9.6 | 0.74 | 0.27–2.00 | ||||
| GG | 22 | 1.8 | 20 | 1.6 | 1.11 | 0.60–2.05 | - | - | - | - | - | - | ||||
| AG + GG | 298 | 23.9 | 286 | 23.0 | 1.05 | 0.87–1.26 | ||||||||||
| MUTYH | rs3219484 | GG | 1085 | 86.4 | 1070 | 85.7 | 1.00 | - | 0.77 | 140 | 97.9 | 75 | 94.9 | 1.00 | - | 0.77 |
| AG | 164 | 13.1 | 173 | 13.9 | 0.94 | 0.74–1.18 | 3 | 2.1 | 4 | 5.1 | 0.29 | 0.06–1.36 | ||||
| AA | 7 | 0.6 | 5 | 0.4 | 1.39 | 0.44–4.41 | - | - | - | - | - | - | ||||
| AG + AA | 171 | 13.6 | 178 | 14.3 | 0.95 | 0.76–1.19 | ||||||||||
| MUTYH | rs9429072 | AA | 720 | 57.1 | 686 | 55.0 | 1.00 | - | 0.37 | 34 | 23.5 | 24 | 30.4 | 1.00 | - | 0.54 |
| AG | 455 | 36.1 | 485 | 38.9 | 0.89 | 0.76–1.05 | 71 | 49.0 | 32 | 40.5 | 1.39 | 0.69–2.79 | ||||
| GG | 85 | 6.8 | 76 | 6.1 | 1.07 | 0.77–1.48 | 40 | 27.6 | 23 | 29.1 | 1.11 | 0.51–2.39 | ||||
| AG + GG | 540 | 42.9 | 561 | 45.0 | 0.92 | 0.78–1.07 | 111 | 76.6 | 55 | 69.6 | 1.27 | 0.67–2.42 | ||||
| OGG1 | rs3218997 | CC | 1126 | 91.4 | 1137 | 91.5 | 1.00 | - | 0.84 | 139 | 95.9 | 77 | 97.5 | 1.00 | - | 0.52 |
| CT | 106 | 8.6 | 106 | 8.5 | 1.01 | 0.76–1.34 | 6 | 4.1 | 2 | 2.5 | 1.82 | 0.34–9.78 | ||||
| XPC | rs1126547 | CC | 969 | 76.8 | 938 | 75.4 | 1.00 | - | 0.33 | 109 | 75.7 | 61 | 77.2 | 1.00 | - | 0.53 |
| CG | 273 | 21.6 | 287 | 23.1 | 0.92 | 0.76–1.11 | 30 | 20.8 | 17 | 21.5 | 0.93 | 0.46–1.89 | ||||
| GG | 20 | 1.6 | 19 | 1.5 | 1.01 | 0.54–1.91 | 5 | 3.5 | 1 | 1.3 | 1.92 | 0.21–17.34 | ||||
| CG + GG | 293 | 23.2 | 306 | 24.6 | 0.93 | 0.77–1.11 | 35 | 24.3 | 18 | 22.8 | 0.99 | 0.50–1.97 | ||||
| XPC | rs2228001 | AA | 457 | 36.4 | 461 | 36.9 | 1.00 | - | 0.66 | 70 | 47.6 | 36 | 43.4 | 1.00 | - | 0.23 |
| AC | 595 | 47.3 | 600 | 48.0 | 1.00 | 0.84–1.19 | 61 | 41.5 | 38 | 45.8 | 0.80 | 0.44–1.46 | ||||
| CC | 205 | 16.3 | 190 | 15.2 | 1.09 | 0.86–1.38 | 16 | 10.9 | 9 | 10.8 | 1.04 | 0.40–2.69 | ||||
| AC + CC | 800 | 63.6 | 790 | 63.2 | 1.02 | 0.87–1.20 | 77 | 52.4 | 47 | 56.6 | 0.85 | 0.48–1.49 | ||||
| XPC | rs2733532 | CC | 461 | 36.5 | 467 | 37.6 | 1.00 | - | 0.74 | 72 | 50.0 | 39 | 47.6 | 1.00 | - | 0.41 |
| CT | 602 | 47.7 | 599 | 48.2 | 1.02 | 0.86–1.21 | 57 | 39.6 | 35 | 42.7 | 0.91 | 0.50–1.65 | ||||
| TT | 199 | 15.8 | 176 | 14.2 | 1.14 | 0.90–1.46 | 15 | 10.4 | 8 | 9.8 | 1.19 | 0.45–3.20 | ||||
| CT + TT | 801 | 63.5 | 775 | 62.4 | 1.05 | 0.89–1.23 | 72 | 50.0 | 43 | 52.4 | 0.96 | 0.54–1.69 | ||||
| XPC | rs2733534 | GG | 340 | 27.6 | 311 | 25.4 | 1.00 | - | 0.39 | 58 | 40.0 | 39 | 47.6 | 1.00 | - | 0.66 |
| CG | 607 | 49.2 | 635 | 51.8 | 0.88 | 0.72–1.06 | 64 | 44.1 | 35 | 42.7 | 1.24 | 0.67–2.28 | ||||
| CC | 286 | 23.2 | 279 | 22.8 | 0.94 | 0.75–1.18 | 23 | 15.9 | 8 | 9.8 | 1.88 | 0.74–4.79 | ||||
| CG + CC | 893 | 72.4 | 914 | 74.6 | 0.90 | 0.75–1.07 | 87 | 60.0 | 43 | 52.4 | 1.36 | 0.77–2.42 | ||||
| XPC | rs8516 | TT | 771 | 61.1 | 753 | 60.3 | 1.00 | - | 0.85 | 106 | 73.6 | 66 | 83.5 | 1.00 | - | 0.76 |
| CT | 425 | 33.7 | 436 | 34.9 | 0.95 | 0.81–1.13 | 38 | 26.4 | 13 | 16.5 | 1.73 | 0.83–3.60 | ||||
| CC | 66 | 5.2 | 60 | 4.8 | 1.08 | 0.75–1.55 | - | - | - | - | - | - | ||||
| CT + CC | 491 | 38.9 | 496 | 39.7 | 0.97 | 0.83–1.14 | ||||||||||
| XRCC1 | rs1799782 | CC | 1098 | 88.1 | 1071 | 86.7 | 1.00 | - | 0.23 | 131 | 89.7 | 72 | 86.8 | 1.00 | - | 0.60 |
| CT | 143 | 11.5 | 158 | 12.8 | 0.88 | 0.69–1.12 | 15 | 10.3 | 9 | 10.8 | 0.97 | 0.38–2.46 | ||||
| TT | 5 | 0.4 | 6 | 0.5 | 0.82 | 0.25–2.68 | - | - | 2 | 2.4 | - | - | ||||
| CT + TT | 148 | 11.9 | 164 | 13.3 | 0.88 | 0.69–1.11 | 15 | 10.3 | 11 | 13.2 | 0.77 | 0.32–1.86 | ||||
| XRCC1 | rs25487 | GG | 522 | 41.5 | 481 | 38.8 | 1.00 | - | 0.77 | 103 | 71.5 | 53 | 64.6 | 1.00 | - | 0.83 |
| AG | 576 | 45.8 | 590 | 47.6 | 0.90 | 0.76–1.07 | 37 | 25.7 | 27 | 33.0 | 0.67 | 0.36–1.25 | ||||
| AA | 159 | 12.7 | 169 | 13.6 | 0.87 | 0.68–1.11 | 4 | 2.8 | 2 | 2.4 | 0.97 | 0.16–5.84 | ||||
| AG + AA | 735 | 58.5 | 759 | 61.2 | 0.89 | 0.76–1.05 | 41 | 28.5 | 29 | 35.4 | 0.69 | 0.38–1.27 | ||||
| XRCC1 | rs25489 | GG | 1120 | 90.0 | 1145 | 91.4 | 1.00 | - | 0.26 | 137 | 93.8 | 76 | 91.6 | 1.00 | - | 0.61 |
| AG | 121 | 9.7 | 106 | 8.5 | 1.17 | 0.87–1.53 | 9 | 6.2 | 7 | 8.4 | 0.59 | 0.20–1.76 | ||||
| AA | 3 | 0.2 | 2 | 0.2 | 1.55 | 0.26–9.27 | - | - | - | - | - | - | ||||
| AG + AA | 124 | 10.0 | 108 | 8.6 | 1.17 | 0.89–1.54 | ||||||||||
| XRCC1 | rs2854509 | CC | 798 | 63.4 | 777 | 62.8 | 1.00 | - | 0.66 | 98 | 67.6 | 56 | 70.0 | 1.00 | - | 0.21 |
| AC | 406 | 32.3 | 400 | 32.3 | 0.99 | 0.83–1.17 | 39 | 26.9 | 23 | 28.8 | 1.09 | 0.57–2.08 | ||||
| AA | 55 | 4.4 | 61 | 4.9 | 0.88 | 0.60–1.28 | 8 | 5.5 | 1 | 1.3 | 2.94 | 0.34–25.66 | ||||
| AC + AA | 461 | 36.6 | 461 | 37.2 | 0.97 | 0.83–1.14 | 47 | 32.4 | 24 | 30.0 | 1.19 | 0.64–2.21 | ||||
| XRCC1 | rs915927 | AA | 400 | 31.8 | 409 | 32.8 | 1.00 | - | 0.73 | 62 | 42.8 | 30 | 38.0 | 1.00 | - | 0.41 |
| AG | 622 | 49.4 | 618 | 49.6 | 1.03 | 0.86–1.23 | 54 | 37.2 | 38 | 48.1 | 0.79 | 0.42–1.50 | ||||
| GG | 238 | 18.9 | 220 | 17.6 | 1.11 | 0.88–1.39 | 29 | 20.0 | 11 | 13.9 | 1.32 | 0.56–3.11 | ||||
| AG + GG | 860 | 68.3 | 838 | 67.2 | 1.05 | 0.89–1.24 | 83 | 57.2 | 49 | 62.0 | 0.92 | 0.51–1.65 | ||||
Total number of cases and controls in both Caucasians and African-Americans vary by SNPs due to missing genotype data.
†
ORs and 95% CI are adjusted for age at diagnosis (cases) and age at reference date (controls).
*
Permuted P-values are for the co-dominant models (2 degrees of freedom) and present the adjusted P-values for multiple comparisons using a permutation procedure (see statistical methods for details).