Table 3. Genetic variants comprising the optimal models for PSMD2 and TCF7L2: analyses conditioning on the top SNP in each region.
| Variant | Reference allele | Minor allele | OR | P-value | Conditional ORa,b | Conditional p-value | Comment |
|---|---|---|---|---|---|---|---|
| PSMD2 region | |||||||
| rs2178403 | G | A | 0.70 | 8.0 x 10−5 | NA | NA | excluded from gene-based analysis during pruning |
| rs55808452 | GGCAAAGGGTGG | - | 0.75 | 1.0 x 10−4 | 0.85 | 0.14 | |
| rs7635741 | G | T | 0.69 | 2.2 x 10−4 | 0.92 | 0.71 | |
| rs1879244 | T | C | 0.72 | 2.4 x 10−4 | 1.19 | 0.60 | |
| rs939317 | G | A | 0.76 | 2.6 x 10−4 | 0.90 | 0.40 | |
| rs9846954 | T | A | 0.87 | 4.2 x 10−4 | 0.90 | 8.6 x 10−3 | |
| rs2376524 | A | C | 0.75 | 5.8 x 10−4 | 1.00 | 0.98 | |
| rs9883929 | A | C | 1.19 | 9.6 x 10−4 | 1.17 | 3.3 x 10−3 | |
| rs1687230 | T | C | 0.84 | 2.2 x 10−3 | 0.91 | 0.16 | |
| rs72591978 | CA | C | 0.89 | 2.9 x 10−3 | 0.92 | 0.039 | |
| TCF7L2 region | |||||||
| rs7903146 | C | T | 1.21 | 1.0 x 10−5 | NA | NA | |
| rs34872471 | T | C | 1.20 | 1.6 x 10−5 | 1.08 | 0.36 | |
| rs114770437 | G | A | 0.73 | 7.7 x 10−5 | 0.77 | 1.3 x 10−3 | |
Abbreviations: OR, odds ratio (adjusted for age at baseline, geographical region, genotyping batch, and genotype principal components); NA, not applicable.
a Conditional odds ratios for variants in the PSMD2 region are adjusted for age at baseline, geographical region, genotyping batch, genotype principal components, and SNP rs2178403.
b Conditional odds ratios for variants in the TCF7L2 region are adjusted for age at baseline, geographical region, genotyping batch, genotype principal components, and SNP rs7903146.