Table 2.
Results from the single-SNP genome wide association analysis showing genotyped SNPs with P values lower than 10-5 in the discovery cohort (SJLIFE), with the OR representing the increased prevalence of premature menopause for each copy of the RA
| SNP (GRCh37/hg19 position) | RA | Copies of RA |
Nearest Gene | RA OR (95% CI) | P* | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| 0 |
1 |
2 |
||||||||
| PM + | PM- | PM + | PM- | PM + | PM- | |||||
| rs9999820 (4:156118325) | G | 1 | 141 | 9 | 390 | 20 | 235 | NPY2R | 7.52 (2.95 to 19.22) | 3.3×10-7 |
| rs4323056 (4:156057352) | A | 2 | 135 | 7 | 363 | 21 | 253 | NPY2R | 6.87 (2.86 to 16.52) | 3.5×10-7 |
| rs6810505 (4:156049730) | G | 2 | 146 | 7 | 366 | 21 | 257 | NPY2R | 6.06 (2.58 to 14.22) | 9.5×10-7 |
| rs12643129 (4:156052085) | A | 2 | 142 | 7 | 358 | 21 | 268 | NPY2R | 6.11 (2.61 to 14.28) | 9.8×10-7 |
| rs2880418 (4:156069879) | G | 2 | 195 | 11 | 378 | 17 | 187 | NPY2R | 5.66 (2.52 to 12.73) | 1.5×10-6 |
| rs10793451 (10:44103895) | T | 0 | 145 | 10 | 356 | 20 | 265 | ZNF485 | 7.14 (2.71 to 18.81) | 2.0×10-6 |
| rs13114936 (4:156062755) | G | 3 | 197 | 9 | 379 | 18 | 196 | NPY2R | 5.21 (2.39 to 11.35) | 2.0×10-6 |
| rs10058075 (5:39416294) | G | 0 | 42 | 4 | 283 | 26 | 444 | DAB2 | 11.64 (3.18 to 42.63) | 3.7×10-6 |
| rs7669884 (4:156048818) | C | 2 | 129 | 7 | 354 | 21 | 285 | NPY2R | 5.72 (2.40 to 13.65) | 4.0×10-6 |
| rs13121931 (4:156070886) | G | 3 | 197 | 10 | 376 | 17 | 196 | NPY2R | 4.81 (2.25 to 10.27) | 5.1×10-6 |
| rs11735253 (4:156116644) | C | 2 | 215 | 12 | 378 | 16 | 173 | NPY2R | 4.85 (2.25 to 10.46) | 5.7×10-6 |
| rs3966085 (4:69830542) | G | 0 | 28 | 1 | 219 | 29 | 521 | UGT2A3 | 28.89 (3.10 to 269.69) | 6.1×10-6 |
| rs12186303 (4:69864983) | A | 0 | 27 | 1 | 208 | 29 | 533 | UGT2A3 | 28.89 (3.09 to 269.83) | 6.4×10-6 |
| rs10447083 (4:69852666) | C | 0 | 24 | 1 | 203 | 29 | 542 | UGT2A3 | 28.89 (3.00 to 261.92) | 8.1×10-6 |
| rs4402990 (4:156108933) | C | 5 | 280 | 9 | 356 | 16 | 132 | NPY2R | 4.19 (2.10 to 8.37) | 8.2×10-6 |
| rs4456917 (4:156108651) | G | 5 | 280 | 9 | 357 | 16 | 132 | NPY2R | 4.19 (2.10 to 8.37) | 8.3×10-6 |
| rs11099988 (4:156109178) | A | 5 | 280 | 9 | 356 | 16 | 133 | NPY2R | 4.19 (2.10 to 8.37) | 8.3×10-6 |
| rs4428241 (4:156108671) | A | 5 | 279 | 9 | 355 | 16 | 133 | NPY2R | 4.19 (2.10 to 8.37) | 8.3×10-6 |
| rs6759058 (2:46000486) | A | 5 | 345 | 15 | 351 | 10 | 73 | PRKCE | 4.30 (2.14 to 8.64) | 9.1×10-6 |
| rs3803922 (19:35619019) | G | 6 | 308 | 15 | 349 | 9 | 90 | LGI4 | 5.27 (2.35 to 11.81) | 9.7×10-6 |
*
Two-sided likelihood ratio test P values. CI = confidence interval; OR = odds ratio; PM = premature menopause; RA = risk allele; SJLIFE = St. Jude Lifetime Cohort Study; SNP = single nucleotide polymorphism.