Table 2.
Variants associated with lung cancer in only ever- or never-smokers.
| EAF | OR _P | |||||||
|---|---|---|---|---|---|---|---|---|
| Strata | SNP | Position | Gene | EUR|EAS|AFR | Weighted score | EUR|EAS|AFR | Joint effect size (P value) | Q |
| Ever-smokers | ||||||||
| LUNG | rs62303696* | 4p12 | GABRA4 | 0.074|0.275|0.028 | 0.94 | 1.17 (2.71 × 10−7)|1.22 (4.81 × 10−3)| 1.33 (6.08 × 10−2) | 1.18 (1.22 × 10−9) | 0.62 |
| LUNG | rs55781567 | 15q25.1 | CHRNA5 | 0.414|0.039|0.299 | 0.99 | 1.31 (5.67 × 10−69)|0.99 (9.65 × 10−1)| 1.32 (8.51 × 10−8) | 1.31 (1.66 × 10−74) | 0.65 |
| SQUAM | rs17879961# | 22q12.1 | CHEK2 | 0.002|0.000|0.000 | 0.89 | 0.25 (2.93 × 10−11)| NA|NA | 0.25 (2.93 × 10−11) | NA |
| SCLC | rs58778970* | 12q24.33 | Intergenic | 0.134|0.007|0.190 | 0.92 | 1.33 (1.50 × 10−7)|0.77 (8.05 × 10−1)| 1.53 (2.40 × 10−2) | 1.34 (1.58 × 10−8) | 0.67 |
| Never-smokers | ||||||||
| ADE | rs4756620* | 11p12 | LRRC4C | 0.998|0.977|0.810 | 0.91 | 0.76 (5.62 × 10−1)|0.57 (1.37 × 10−8)| 0.64 (1.28 × 10−2) | 0.59 (6.51 × 10−10) | 0.74 |
| SQC | rs6757055# | 2q34 | IKZF2 | 0.962|0.909|0.917 | 0.96 | 1.44 (1.94 × 10−1)|0.56 (1.51 × 10−11)| 0.71 (6.49 × 10−1) | 0.61 (1.11 × 10−9) | 0.01 |
| SQC | rs1383429* | 4q21.21 | LINC01088 | 0.909|0.878|0.492 | 0.97 | 0.73 (8.74 × 10−2)|0.64 (5.57 × 10−9)| 1.56 (3.13 × 10−1) | 0.67 (6.44 × 10−9) | 0.12 |
| SQC | rs968516* | 9q34.3 | LCNL1 | 0.947|0.966|0.923 | 0.86 | 0.62 (4.10 × 10−2)|0.36(8.07 × 10−10)| 0.92 (9.47 × 10−1) | 0.34 (8.19 × 10−10) | 0.12 |
| Never-smoking women | ||||||||
| Overall | rs12265047 | 10q25.2 | VTI1A | 0.949|0.701|0.626 | 0.93 | 0.63 (4.64 × 10−5)|0.77 (4.53 × 10−13)| 0.63 (3.29 × 10−3) | 0.75 (1.10 × 10−17) | 0.68 |
| ADE | rs7962469 | 12q13.13 | ACVR1B | 0.684|0.674|0.443 | 0.90 | 1.12 (5.61 × 10−2)|1.18 (1.63 × 10−6)| 1.74 (3.14 × 10−3) | 1.18 (3.73 × 10−8) | 0.03 |
Note: The risk variants with association evidence from only ever- or never-smoking individuals (not from both groups).
Abbreviations: EAF, effective allele frequency. Q indicates the heterogeneity p value. EUR: European population; EAS, East Asian population; AFR, African population. Weighted score indicated the imputation quality score weighted by sample size from the studies. #, known variants identified from previous studies but shown to be related to lung cancer in only ever- or never-smoking group. *, novel variants identified in this study.