Table 3.
SNPs Associated with Hypothyroidism at p < 10−6 with Either Primary Controls or Non-TSH Controls
| SNP | Chromosome | Position | Minor Allele | Nearest Gene |
Minor Allele Frequency |
Cases versus Controls |
Cases versus Non-TSH Controls |
||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Case | Controls | Non-TSH Controls | OR (95% CI) | p Value | OR (95% CI) | p Value | |||||
| rs7850258 | 9 | 99588834 | A | FOXE1 | 0.285 | 0.348 | 0.3452 | 0.74 (0.67–0.82) | 3.96 × 10−9 | 0.74 (0.67–0.82) | 8.17 × 10−9 |
| rs965513 | 9 | 99595930 | A | FOXE1 | 0.286 | 0.348 | 0.3456 | 0.74 (0.67–0.82) | 4.19 × 10−9 | 0.74 (0.67–0.82) | 1.15 × 10−8 |
| rs925489 | 9 | 99586421 | C | FOXE1 | 0.286 | 0.348 | 0.3452 | 0.74 (0.67–0.82) | 4.68 × 10−9 | 0.74 (0.67–0.82) | 1.17 × 10−8 |
| rs10759944 | 9 | 99596793 | A | FOXE1 | 0.286 | 0.347 | 0.3445 | 0.75 (0.68-0.83) | 8.19 × 10−9 | 0.74 (0.67–0.82) | 1.50 × 10−8 |
| rs4979402 | 9 | 116262496 | G | DFNB31 | 0.288 | 0.247 | 0.2518 | 1.29 (1.16–1.42) | 1.23 × 10−6 | 1.17 (1.05–1.30) | 0.0035 |
| rs4979397 | 9 | 116259709 | T | DFNB31 | 0.286 | 0.246 | 0.2500 | 1.28 (1.16–1.42) | 1.91 × 10−6 | 1.17 (1.06–1.31) | 0.0033 |
| rs1877432 | 9 | 99583701 | A | 9q22.3; near FOXE1 | 0.437 | 0.382 | 0.3885 | 1.25 (1.14–1.37) | 1.99 × 10−6 | 1.28 (1.16–1.41) | 4.29 × 10−7 |
| rs1408528 | 9 | 116260594 | C | DFNB31 | 0.286 | 0.246 | 0.2507 | 1.28 (1.16–1.42) | 2.07 × 10−6 | 1.17 (1.05–1.30) | 0.0039 |
| rs17827152 | 4 | 55173443 | A | 4q12; closest to KIT | 0.263 | 0.219 | 0.2348 | 1.28 (1.15–1.42) | 3.20 × 10−6 | 1.16 (1.04–1.29) | 0.0084 |
| rs1535971 | 9 | 116269221 | T | DFNB31 | 0.299 | 0.260 | 0.2629 | 1.27 (1.15-1.40) | 3.65 × 10−6 | 1.17 (1.05–1.30) | 0.0035 |
| rs17043990 | 3 | 72963160 | C | SHQ1 | 0.0091 | 0.0024 | 0.0050 | 3.71 (2.08–6.60) | 8.34 × 10−6 | 2.47 (1.44–4.25) | 0.0011 |
| rs4733792 | 8 | 128909458 | T | PVT1 | 0.4445 | 0.4077 | 0.3884 | 1.18 (1.08,1.30) | 2.35 × 10−4 | 1.26 (1.14–1.39) | 2.40x10−6 |
| rs4733789 | 8 | 128903585 | C | PVT1 | 0.4461 | 0.4112 | 0.391 | 1.17 (1.07, 1.28) | 5.51 × 10−4 | 1.26 (1.14–1.38) | 3.01x10−6 |
| rs17280788 | X | 9638573 | T | TBL1X | 0.2612 | 0.2382 | 0.2133 | 1.14 (1.02–1.28) | 0.019 | 1.35 (1.20–1.52) | 9.94x10−7 |
| rs1791303 | 18 | 55606206 | T | CCBE1 | 0.3651 | 0.4068 | 0.4111 | 0.83 (0.75, 0.91) | 6.70 × 10−4 | 0.79 (0.72–0.87) | 2.13x10−6 |
| rs4940904 | 18 | 55606041 | T | CCBE1 | 0.3662 | 0.4071 | 0.4112 | 0.83 (0.76,0.91) | 1.10 × 10−4 | 0.79 (0.72–0.88) | 2.93x10−6 |
Analyses performed with logistic regression adjusted for birth decade, sex, and site of ascertainment. DFNB31 SNPs are in the gene. FOXE1 SNPs are from 58–71 kb to the gene. The DIRAS2 SNP is in the gene. SHQ1 (MIM 602322) SNPs are in the gene.