Table 4 |.
Genome-wide interaction analysis of vascular and non-vascular complications (overall results)
| Outcome type | Outcome | SNP | RSID | NEA | EA | EAF | P for interaction | Nearest gene |
|---|---|---|---|---|---|---|---|---|
| Vascular | CHD | chr9:22076071 | rs1831733 | T | C | 0.482 | 1.6E-13 | CDKN2B;CDKN2A |
| chr1:109821511 | rs602633 | G | T | 0.216 | 4.4E-10 | SORT1 | ||
| chr12:20231526 | rs71039916 | TCTTA | T | 0.034 | 8.2E-09 | PDE3A | ||
| AIS | chr1:15429233 | rs491203 | G | A | 0.057 | 7.6E-09 | TMEM51 | |
| chr8:94056373 | rs2134937 | T | C | 0.049 | 3.3E-08 | TRIQK | ||
| PAD | chr8:97331026 | rs3104154 | C | T | 0.044 | 3.0E-08 | PTDSS1 | |
| Non-vascular | Retinopathy | chr1:146606059 | rs76754787 | ATT | AT | 0.030 | 1.2E-11 | GJA8 |
| chr10:30992882 | rs10733997 | A | G | 0.037 | 9.7E-09 | SVILP2 | ||
| chr10:119646217 | rs2255624 | T | G | 0.032 | 1.6E-08 | SLC18A2 | ||
| chr10:114767771 | rs4132670 | G | A | 0.319 | 2.1E-08 | TCF7L2 | ||
| CKD | chr16:20356012 | rs34857077 | G | GA | 0.237 | 6.4E-19 | UMOD | |
| chr4:181816870 | rs2177223 | T | C | 0.038 | 2.8E-08 | TENM3 | ||
| Neuropathy | chr2:206668118 | rs78977169 | CATA | C | 0.023 | 3.4E-08 | NRP2 |
The analysis included a total case count of 67,403 for CKD, 56,285 for CHD, 35,882 for PAD, 11,796 for AIS, 13,881 for retinopathy, and 40,475 for neuropathy. Results stratified by T2D presence (yes or no) are presented in Supplementary Table 26. A logistic regression analysis was performed among MVP participants of European ancestry, where the respective outcome was tested with SNP, T2D, SNPxT2D, age, gender, and 10 PCs as covariates. P-value for interaction between SNP and T2D are noted in the column labeled P for interaction. Variants were considered to show a statistically different effect between people with and without T2D if the P-value for interaction was genome-wide significant (P < 5 × 10−8) and at least one T2D-stratum showed nominal significance (P < 0.001, Supplementary Table 26). RSID, RefSNP identification number; CHD, coronary heart disease; AIS, acute ischemic stroke; PAD, peripheral artery disease; CKD, chronic kidney disease; NEA, non-effect allele; EA, effect allele; EAF, effect allele frequency.