Table 1.
Predicted variant by environment interactions for factors prioritized by strength of genetic or environmental association to T2D
| E-factor | E-factor OR | Gene (snp) (reference) | Variant OR | CTD-curated molecular interaction (reference) |
|---|---|---|---|---|
| (95% CI) | (95% CI) | |||
| γ-Tocopherol | 1.38 (1.20–1.60) | PPARG [rs1801282] (Zeggini et al., 2007) | 1.14 (1.08–1.2) | Increases gene expression (Campbell et al., 2003) |
| Cis-β-carotene | 0.66 (0.55–0.79) | PPARG [rs1801282] (Zeggini et al., 2007) | 1.14 (1.08–1.2) | Decreases gene expression (Kawada et al., 2000) |
| Vitamin D | 0.68 (0.57–0.81) | PPARG [rs1801282] (Zeggini et al., 2007) | 1.14 (1.08–1.2) | Affects gene expression (Callens et al., 2010) |
| Trans-β-carotene | 0.70 (0.58–0.82) | PPARG [rs1801282] (Zeggini et al., 2007) | 1.07 (1.05–1.09) | Decreases gene expression (Kawada et al., 2000) |
| PCB187 | 1.89 (1.3–2.8) | PRC1 [rs8042680] (Voight et al., 2010) | 1.07 (1.05–1.09) | Increases gene expression (Buterin et al., 2006) |
| Total β-carotene | 0.71 (0.60–0.85) | PPARG [rs1801282] (Zeggini et al., 2007) | 1.14 (1.08–1.2) | Decreases gene expression (Kawada et al., 2000) |
Each row depicts a candidate interaction pair, its marginal effect size (Odds ratio) and type, and citation of molecular interaction (right column). For example, in the first row, γ-tocopherol has a documented molecular interaction with PPARG (‘increasing gene expression’). Odds ratios for environmental factor are for 1 SD change in logged exposure variable. Variant odds ratios are for an additive genetic model. Factors chosen based on strength of marginal association (p≤5×10−6 and q≤10%).