Table 1. Characteristics of SNPs considered for use in Mendelian randomization analysis of the effect of T2D on CHD risk.
| Locus | SNP | EA | NEA | OR T2D | P value T2D | OR CHD | P value CHD | Pleiotropic effect | Physiologic cluster |
|---|---|---|---|---|---|---|---|---|---|
| ADCY5 | rs11717195 | T | C | 1.11 | 6.5E−14 | 1.00 | 8.3E−01 | No | BC |
| CDKAL1 | rs7756992 | G | A | 1.17 | 7.0E−35 | 1.02 | 7.2E−02 | No | BC |
| CDKN2A/B | rs10811661 | T | C | 1.18 | 3.7E−27 | 1.00 | 6.8E−01 | No | BC |
| DGKB | rs17168486 | T | C | 1.11 | 5.9E−11 | 1.00 | 6.6E−01 | No | BC |
| HHEX/IDE | rs1111875 | C | T | 1.11 | 2.0E−19 | 1.02 | 1.3E−02 | No | BC |
| PROX1 | rs2075423 | G | T | 1.07 | 8.1E−09 | 1.00 | 7.1E−01 | No | BC |
| SLC30A8 | rs3802177 | G | A | 1.14 | 1.3E−21 | 1.01 | 3.3E−01 | No | BC |
| THADA | rs10203174 | C | T | 1.14 | 9.5E−12 | 1.01 | 5.9E−01 | No | BC |
| MTNR1B | rs10830963 | G | C | 1.10 | 5.3E−13 | 1.01 | 2.6E−01 | No | HG |
| ANK1 | rs516946 | C | T | 1.09 | 2.5E−10 | 1.01 | 2.8E−01 | No | NA |
| BCAR1 | rs7202877 | T | G | 1.12 | 3.5E−08 | 1.07 | 2.7E−05 | No | NA |
| HMG20A | rs7177055 | A | G | 1.08 | 4.6E−09 | 1.01 | 2.1E−01 | No | NA |
| KLHDC5 | rs10842994 | C | T | 1.10 | 6.1E−10 | 0.99 | 2.4E−01 | No | NA |
| TLE1 | rs2796441 | G | A | 1.07 | 5.4E−09 | 1.02 | 9.5E−02 | No | NA |
| UBE2E2 | rs1496653 | A | G | 1.09 | 3.6E−09 | 1.01 | 5.8E−01 | No | NA |
| ZMIZ1 | rs12571751 | A | G | 1.08 | 1.0E−10 | 0.99 | 5.2E−01 | No | NA |
| ARAP1 (CENTD2) | rs1552224 | A | C | 1.11 | 1.8E−10 | 0.99 | 3.4E−01 | No | PI |
| BCL11A | rs243088 | T | A | 1.07 | 1.8E−08 | 1.02 | 3.8E−02 | No | UC |
| HMGA2 | rs2261181 | T | C | 1.13 | 1.2E−09 | 1.01 | 4.0E−01 | No | UC |
| IGF2BP2 | rs4402960 | T | G | 1.13 | 2.4E−23 | 1.02 | 1.5E−02 | No | UC |
| JAZF1 | rs849135 | G | A | 1.11 | 3.1E−17 | 1.02 | 5.8E−03 | No | UC |
| KCNQ1 | rs163184 | G | T | 1.09 | 1.2E−11 | 1.02 | 2.2E−02 | No | UC |
| PRC1 | rs12899811 | G | A | 1.08 | 6.3E−09 | 1.01 | 1.4E−01 | No | UC |
| TSPAN8/LGR5 | rs7955901 | C | T | 1.07 | 6.5E−09 | 0.99 | 4.6E−01 | No | UC |
| WFS1 | rs4458523 | G | T | 1.10 | 2.0E−15 | 1.01 | 4.6E−01 | No | UC |
| ZBED3 | rs6878122 | G | A | 1.10 | 5.0E−11 | 1.02 | 3.8E−01 | No | UC |
| TCF7L2 | rs7903146 | T | C | 1.39 | 1.2E−139 | 1.03 | 5.7E−03 | Yes | BC |
| IRS1 | rs2943640 | C | A | 1.10 | 2.7E−14 | 1.03 | 5.2E−04 | Yes | IR |
| PPARG | rs1801282 | C | G | 1.13 | 1.1E−12 | 1.00 | 7.8E−01 | Yes | IR |
| ANKRD55 | rs459193 | G | A | 1.08 | 6.0E−09 | 1.02 | 2.5E−02 | Yes | NA |
| CILP2 | rs10401969 | C | T | 1.13 | 7.0E−09 | 0.93 | 7.3E−05 | Yes | NA |
| FTO | rs9936385 | C | T | 1.13 | 2.6E−23 | 1.03 | 4.2E−03 | Yes | NA |
| GRB14 | rs13389219 | C | T | 1.07 | 1.0E−08 | 1.02 | 7.2E−02 | Yes | NA |
| MC4R | rs12970134 | A | G | 1.08 | 1.2E−08 | 1.03 | 1.8E−03 | Yes | NA |
| SPRY2 | rs1359790 | G | A | 1.08 | 1.4E−08 | 0.99 | 4.7E−01 | Yes | NA |
| ADAMTS9 | rs6795735 | C | T | 1.08 | 7.4E−11 | 0.98 | 1.8E−02 | Yes | UC |
| KCNJ11 | rs5215 | C | T | 1.07 | 8.5E−10 | 1.02 | 1.8E−02 | Yes | UC |
BC, beta-cell dysfunction; CHD, coronary heart disease; CPMA, cross-phenotype meta-analysis; EA, effect allele; HG, hyperglycemic; IR, insulin resistance; NA, not available; NEA, non-effect allele; OR, odds ratio; PI, pro-insulin; SNP, single nucleotide polymorphism; T2D, type-2 diabetes; UC, unclassified.
Pleiotropic effect: ‘Yes' indicates that the SNP was associated with at least one confounding trait in the CPMA analysis. See Supplementary Table 2 for a full description of these pleiotropic associations. Physiologic Clusters: UC, IR, BC, PI, HG and NA. Note that the OR for CHD is not weighted for the effect of each SNP on T2D or fasting glucose. Figures report the OR for CHD weighted by their effect on T2D.