Table 2.
Modification of selected SNP-specific odds ratios for tobacco-related cancers pooled and stratified by ethnicity, smoking status, and cancer site.
| SNP and cancer site | Ever smoker | Genotype | Case | Control | cOR | 95% CI | aOR | 95% CI | FPRP prior probability |
||
|---|---|---|---|---|---|---|---|---|---|---|---|
| 0.10 | 0.05 | 0.01 | |||||||||
| TNF rs1799964 | |||||||||||
| All cancer sites pooled | No | TT + CT | 434 | 633 | 1.0 | 1.0 | |||||
| No | CC | 10 | 35 | 0.42 | 0.20–0.85 | 0.41 | 0.19–0.85 | 0.22 | 0.37 | 0.76 | |
| Yes | TT + CT | 1,044 | 650 | 2.3 | 2.0–2.7 | 2.4 | 2.0–2.8 | <0.01 | <0.01 | <0.01 | |
| Yes | CC | 45 | 20 | 3.3 | 1.9–5.6 | 3.3 | 1.9–5.8 | <0.01 | <0.01 | 0.02 | |
| ROR | 3.4 | 1.4–8.2 | 3.4 | 1.4–8.6 | 0.25 | 0.41 | 0.78 | ||||
| White | No | TT + CT | 11 | 329 | 1.0 | 1.0 | |||||
| No | CC | 1 | 12 | 0.25 | 0.03–1.9 | 0.26 | 0.03–2.1 | ||||
| Yes | TT + CT | 528 | 314 | 5.0 | 3.9–6.4 | 3.6 | 2.8–4.8 | <0.01 | <0.01 | <0.01 | |
| Yes | CC | 25 | 9 | 8.2 | 3.73–18 | 6.7 | 2.9–15 | 0.01 | 0.01 | 0.07 | |
| ROR | 6.7 | 0.74–60 | 7.1 | 0.76–66 | |||||||
| Hispanic | No | TT + CT | 43 | 75 | 1.0 | 1.0 | |||||
| No | CC | 0 | 3 | ||||||||
| Yes | TT + CT | 77 | 102 | 1.3 | 0.82–2.1 | 1.3 | 0.80–2.2 | ||||
| Yes | CC | 6 | 1 | 10 | 1.2–90 | 11 | 1.3–97 | 0.75 | 0.87 | 0.87 | |
| ROR | |||||||||||
| African-American | No | TT + CT | 19 | 29 | 1.0 | 1.0 | |||||
| No | CC | 1 | 1 | 1.5 | 0.11–32 | 2.7 | 0.15–49 | ||||
| Yes | TT + CT | 103 | 43 | 3.7 | 1.9–7.2 | 3.5 | 1.8–7.1 | 0.02 | 0.05 | 0.20 | |
| Yes | CC | 1 | 1 | 1.5 | 0.09–26 | 1.8 | 0.10–31 | ||||
| ROR | 0.28 | 0.01–15 | 0.18 | 0.004–11 | |||||||
| Asian-American | No | TT + CT | 36 | 26 | 1.0 | 1.0 | |||||
| No | CC | 1 | 3 | 0.23 | 0.02–2.4 | 0.24 | 0.02–2.5 | ||||
| Yes | TT + CT | 38 | 21 | 1.3 | 0.60–2.6 | 1.3 | 0.63–2.7 | ||||
| Yes | CC | 3 | 1 | 2.1 | 0.20–22 | 2.2 | 0.21–22 | ||||
| ROR | 6.8 | 0.25–181 | 10.0 | 0.31–332 | |||||||
| Han Chinese | No | TT + CT | 221 | 164 | 1.0 | 1.0 | |||||
| No | CC | 7 | 14 | 0.37 | 0.15–0.94 | 0.38 | 0.14–0.98 | 0.47 | 0.65 | 0.91 | |
| Yes | TT + CT | 283 | 151 | 1.4 | 1.1–1.8 | 1.5 | 1.1–2.2 | 0.18 | 0.31 | 0.70 | |
| Yes | CC | 8 | 8 | 0.74 | 0.27–2.0 | 0.78 | 0.27–2.2 | ||||
| ROR | 1.4 | 0.37–5.6 | 1.4 | 0.33–5.4 | |||||||
| IL10 rs1800871 | |||||||||||
| Lung | No | CC + CT | 63 | 387 | 1.0 | 1.0 | |||||
| No | TT | 28 | 33 | 5.2 | 3.0–9.2 | 3.1 | 1.6–5.9 | 0.02 | 0.04 | 0.19 | |
| Yes | CC + CT | 387 | 424 | 5.6 | 4.2–7.6 | 1.2 | 0.82–1.8 | ||||
| Yes | TT | 47 | 61 | 4.7 | 3.0–7.5 | 1.2 | 0.68–2.1 | ||||
| ROR | 0.16 | 0.08–0.33 | 0.31 | 0.14–0.69 | 0.12 | 0.23 | 0.60 | ||||
| White | No | CC + CT | 24 | 263 | 1.0 | 1.0 | |||||
| No | TT | 1 | 10 | 1.1 | 0.13–8.9 | 1.0 | 0.12–8.3 | ||||
| Yes | CC + CT | 270 | 266 | 11 | 7.1–17 | 1.8 | 1.0–3.2 | 0.29 | 0.46 | 0.82 | |
| Yes | TT | 15 | 22 | 7.5 | 3.4–16 | 1.2 | 0.45–3.2 | ||||
| ROR | 0.61 | 0.07–5.6 | 0.67 | 0.07–6.5 | |||||||
| Hispanic | No | CC + CT | 19 | 71 | 1.0 | 1.0 | |||||
| No | TT | 9 | 10 | 3.4 | 1.2–9.5 | 3.8 | 1.2–12 | 0.43 | 0.61 | 0.89 | |
| Yes | CC + CT | 30 | 87 | 1.3 | 0.67–2.5 | 0.72 | 0.31–1.7 | ||||
| Yes | TT | 5 | 20 | 0.93 | 0.31–2.8 | 0.70 | 0.21–2.3 | ||||
| ROR | 0.21 | 0.05–0.93 | 0.25 | 0.05–1.2 | |||||||
| African-American | No | CC + CT | 8 | 28 | 1.0 | 1.0 | |||||
| No | TT | 0 | 1 | ||||||||
| Yes | CC + CT | 58 | 42 | 4.8 | 2.0–12 | 1.1 | 0.33–3.8 | ||||
| Yes | TT | 17 | 6 | 9.9 | 2.9–34 | 4.7 | 1.1–21 | 0.65 | 0.80 | 0.95 | |
| ROR | |||||||||||
| Asian-American | No | CC + CT | 9 | 16 | 1.0 | 1.0 | |||||
| No | TT | 18 | 11 | 2.9 | 0.96–8.8 | 3.7 | 1.1–12 | 0.52 | 0.70 | 0.92 | |
| Yes | CC + CT | 18 | 10 | 3.2 | 1.0–10 | 0.76 | 0.15–3.9 | ||||
| Yes | TT | 10 | 12 | 1.5 | 0.46–4.8 | 0.48 | 0.10–2.4 | ||||
| ROR | 0.17 | 0.03–0.84 | 0.18 | 0.03–1.1 | |||||||
| IFNG rs2069705 | |||||||||||
| Oropharynx | No | TT+CT | 60 | 339 | 1.0 | 1.0 | |||||
| No | CC | 21 | 67 | 1.8 | 1.0–3.1 | 1.9 | 1.0–3.4 | 0.30 | 0.47 | 0.82 | |
| Yes | TT+CT | 115 | 360 | 1.8 | 1.3–2.6 | 0.82 | 0.52–1.3 | ||||
| Yes | CC | 16 | 90 | 1.0 | 0.55–1.8 | 0.48 | 0.24–0.98 | 0.36 | 0.55 | 0.86 | |
| ROR | 0.31 | 0.14–0.70 | 0.31 | 0.13–0.73 | 0.19 | 0.33 | 0.72 | ||||
| White | No | TT+CT | 44 | 233 | 1.0 | 1.0 | |||||
| No | CC | 8 | 21 | 2.0 | 0.84–4.8 | 2.0 | 0.83–5.0 | ||||
| Yes | TT+CT | 79 | 239 | 1.8 | 1.2–2.6 | 0.90 | 0.51–1.6 | ||||
| Yes | CC | 3 | 25 | 0.64 | 0.18–2.2 | 0.39 | 0.11–1.4 | ||||
| ROR | 0.18 | 0.04–0.81 | 0.21 | 0.05–1.0 | 0.68 | 0.82 | 0.96 | ||||
| IFNGR1 rs11914 | |||||||||||
| Esophagus (Taixing) | No | TT | 67 | 161 | 1.0 | 1.0 | |||||
| No | GT + GG | 17 | 36 | 1.1 | 0.60–2.2 | 1.1 | 0.55–2.2 | ||||
| Yes | TT | 96 | 141 | 1.6 | 1.1–2.4 | 2.0 | 0.97–4.0 | ||||
| Yes | GT + GG | 12 | 42 | 0.69 | 0.34–1.4 | 0.74 | 0.29–1.9 | ||||
| ROR | 0.40 | 0.15–1.0 | 0.37 | 0.13–1.0 | 0.51 | 0.68 | 0.92 | ||||
aOR: odds ratio (OR) adjusted for study location/ethnicity (pooled analysis only), ethnicity (lung analysis only), age, gender, education, tobacco smoking, and alcohol use (esophagus analysis only); CI: confidence interval; cOR: crude OR; FPRP: false positive report probability. FPRP values are the posterior probabilities of reporting a false positive result, given the statistical power to detect a smoking-stratified aOR or ROR of at least 2.5. Values of FPRP less than 0.4 are bold-faced, indicating noteworthy observations; ROR: ratio of odds ratios; SNP: single nucleotide polymorphism.