Table 1:
Top genetic variants located in tuberculosis-related genes that contributed to the association with lung adenocarcinoma among never-smoking Asian women
| Gene | SNP, rs number | Chromosome | Position, GRCh37-hg19 | Reference Allele | Effect Allele | Estimate, log OR | SE | PSNP | Pgene |
|---|---|---|---|---|---|---|---|---|---|
| FHAD1 | rs7539674 | 1 | 15597675 | A | G | 1.85 | 0.40 | 3.5E-06 | 0.001 |
| HLA-DQA1 | rs3129763 | 6 | 32590925 | G | A | −0.58 | 0.18 | 1.2E-03 | 0.009 |
| DLG2 | rs 1311159 | 11 | 84695711 | T | C | −0.15 | 0.04 | 1.3E-05 | 0.017 |
| ZFPM2 | rs2343595 | 8 | 106591207 | G | C | 0.09 | 0.03 | 5.9E-04 | 0.020 |
| ZFPM2 | - | 8 | 106393057 | T | C | −0.22 | 0.06 | 5.9E-04 | 0.020 |
| ZFPM2 | - | 8 | 106546262 | C | T | −0.16 | 0.05 | 8.7E-04 | 0.020 |
| ZFPM2 | rs35893068 | 8 | 106480315 | T | C | −0.13 | 0.04 | 1.2E-03 | 0.020 |
| ZFPM2 | rs2343596 | 8 | 106593207 | C | A | −0.09 | 0.03 | 2.1E-03 | 0.020 |
| MEIS2 | rs 12909569 | 15 | 37217527 | A | G | −0.23 | 0.06 | 4.2E-04 | 0.067 |
| MEIS2 | rs3901057 | 15 | 37292836 | G | A | 0.13 | 0.04 | 0.002 | 0.067 |
| MEIS2 | rs17436991 | 15 | 37315283 | T | C | −0.14 | 0.05 | 0.003 | 0.067 |
| MEIS2 | rs12708547 | 15 | 37227850 | G | C | −0.10 | 0.03 | 0.004 | 0.067 |
| MEIS2 | rs4924117 | 15 | 37313594 | C | T | 0.09 | 0.03 | 0.005 | 0.067 |
| LRRC69 | rs7015316 | 8 | 92105675 | C | T | 1.68 | 0.61 | 0.006 | 0.068 |
| LRRC69 | rs78041518 | 8 | 92189901 | A | G | −0.22 | 0.08 | 0.008 | 0.068 |
| LRRC69 | rs147312721 | 8 | 92170657 | A | G | −0.41 | 0.16 | 0.009 | 0.068 |
| LRRC69 | - | 8 | 92162739 | G | A | −0.44 | 0.18 | 0.015 | 0.068 |
| LRRC69 | rs13256627 | 8 | 92123208 | T | C | −1.57 | 0.67 | 0.019 | 0.068 |
Listed SNPs were selected by the sARTP method as the ones that contributed the most to the overall gene set-association in the pathway analysis. Each SNP was located in or within 20 kb upstream/downstream of each gene.