Logistic regression for CHD3 case fatality for new cases during follow-up, multiplicative allele effects

Rank SNP name in MORGAM RS-code Chromosome Success Genotype Cases Non-cases Total OR (95% CI) nominal p-value tail-area FDR
1 2Q36_3_MG_447 rs7597168 2 99.6% C/C 154 (52%) 297 (58%) 451 0.743
(0.581, 0.951)		 0.01847 0.39938
C/T 115 (39%) 198 (38%) 313
T/T 27 (9%) 21 (4%) 48
2 5Q21_1_MG_455 rs383830 5 99.4% A/A 15 (5%) 21 (4%) 36 1.291
(0.995, 1.674)		 0.05435 0.39938
A/T 110 (38%) 161 (31%) 271
T/T 168 (57%) 335 (65%) 503
3 5Q21_1_MG_436 rs449650 5 99.9% G/G 170 (57%) 335 (65%) 505 0.781
(0.604, 1.009)		 0.05881 0.39938
G/T 110 (37%) 161 (31%) 271
T/T 16 (5%) 22 (4%) 38
4 MTHFD1L_MG_423 rs12525353 6 99.5% A/A 0 (0%) 0 (0%) 0 0.373
(0.134, 1.039)		 0.05909 0.39938
A/C 5 (2%) 18 (3%) 23
C/C 289 (98%) 499 (97%) 788
5 5Q21_1_MG_441 rs565928 5 100.0% C/C 171 (58%) 335 (65%) 506 0.784
(0.606, 1.013)		 0.06288 0.39938
C/T 110 (37%) 161 (31%) 271
T/T 16 (5%) 22 (4%) 38
6 10Q11_21_MG_432 rs2146807 10 100.0% C/C 1 (0%) 6 (1%) 7 0.678
(0.449, 1.022)		 0.06322 0.39938
C/T 38 (13%) 88 (17%) 126
T/T 258 (87%) 424 (82%) 682
7 5Q21_1_MG_435 rs436495 5 99.0% A/A 23 (8%) 25 (5%) 48 1.253
(0.977, 1.608)		 0.07549 0.39938
A/G 110 (37%) 174 (34%) 284
G/G 162 (55%) 313 (61%) 475
8 19Q12_MG_446 rs7250581 19 99.3% A/A 11 (4%) 11 (2%) 22 1.307
(0.972, 1.756)		 0.07607 0.39938
A/G 73 (25%) 127 (25%) 200
G/G 209 (71%) 378 (73%) 587
9 19Q12_MG_422 rs11670734 19 100.0% C/C 27 (9%) 43 (8%) 70 1.216
(0.961, 1.539)		 0.10273 0.46302
C/G 126 (42%) 209 (40%) 335
G/G 144 (48%) 266 (51%) 410
10 SMAD3_MG_424 rs12913547 15 100.0% C/C 29 (10%) 38 (7%) 67 1.211
(0.957, 1.532)		 0.11024 0.46302
C/T 130 (44%) 203 (39%) 333
T/T 138 (46%) 277 (53%) 415
11 PSRC1_MG_460 rs599839 1 99.0% A/A 184 (62%) 290 (57%) 474 1.183
(0.918, 1.526)		 0.19395 0.74053
A/G 92 (31%) 192 (38%) 284
G/G 20 (7%) 29 (6%) 49
12 SEZ6L_MG_427 rs137209 22 100.0% A/A 32 (11%) 45 (9%) 77 1.139
(0.902, 1.438)		 0.27508 0.86565
A/G 131 (44%) 231 (45%) 362
G/G 134 (45%) 242 (47%) 376
13 1Q31_2_MG_453 rs1936982 1 99.0% C/C 36 (12%) 73 (14%) 109 0.888
(0.709, 1.111)		 0.29816 0.86565
C/T 123 (42%) 220 (43%) 343
T/T 133 (46%) 222 (43%) 355
14 SEZ6L_MG_442 rs6005015 22 100.0% C/C 17 (6%) 43 (8%) 60 0.879
(0.688, 1.122)		 0.30000 0.86565
C/T 127 (43%) 222 (43%) 349
T/T 153 (52%) 253 (49%) 406
15 MIA3_MG_430 rs17465637 1 99.8% A/A 27 (9%) 32 (6%) 59 1.134
(0.890, 1.444)		 0.30916 0.86565
A/C 108 (37%) 191 (37%) 299
C/C 160 (54%) 295 (57%) 455
16 CELSR2_MG_434 rs413380 1 100.0% C/C 274 (92%) 475 (92%) 749 1.288
(0.762, 2.177)		 0.34475 0.87578
C/T 23 (8%) 40 (8%) 63
T/T 0 (0%) 3 (1%) 3
17 SEZ6L_MG_426 rs137205 22 99.9% A/A 26 (9%) 30 (6%) 56 1.121
(0.878, 1.432)		 0.35938 0.87578
A/G 117 (40%) 217 (42%) 334
G/G 153 (52%) 271 (52%) 424
18 9P21_3_MG_421 rs10757283 9 99.8% C/C 74 (25%) 131 (25%) 205 0.909
(0.730, 1.132)		 0.39570 0.87578
C/T 144 (48%) 277 (54%) 421
T/T 79 (27%) 108 (21%) 187
19 CELSR2_MG_438 rs4970834 1 99.8% C/C 195 (66%) 312 (60%) 507 1.121
(0.857, 1.466)		 0.40602 0.87578
C/T 82 (28%) 189 (37%) 271
T/T 19 (6%) 16 (3%) 35
20 MTHFD1L_MG_449 rs12214306 6 99.4% C/C 1 (0%) 0 (0%) 1 1.311
(0.665, 2.585)		 0.43471 0.87578
C/T 14 (5%) 23 (4%) 37
T/T 278 (95%) 494 (96%) 772
21 MIA3_MG_454 rs3008621 1 99.1% A/A 7 (2%) 8 (2%) 15 1.134
(0.826, 1.557)		 0.43789 0.87578
A/G 70 (24%) 114 (22%) 184
G/G 215 (74%) 394 (76%) 609
22 SEZ6L_MG_457 rs6005016 22 99.3% A/A 0 (0%) 0 (0%) 0 0.800
(0.434, 1.472)		 0.47255 0.90214
A/G 18 (6%) 41 (8%) 59
G/G 275 (94%) 475 (92%) 750
23 2Q36_3_MG_461 rs2943634 2 95.6% A/A 32 (11%) 55 (11%) 87 1.077
(0.855, 1.356)		 0.53026 0.92681
A/C 138 (48%) 212 (43%) 350
C/C 118 (41%) 224 (46%) 342
24 9P21_3_MG_425 rs1333049 9 100.0% C/C 51 (17%) 105 (20%) 156 0.933
(0.750, 1.160)		 0.53175 0.92681
C/G 150 (51%) 257 (50%) 407
G/G 96 (32%) 156 (30%) 252
25 9P21_3_MG_459 rs7865618 9 99.0% A/A 91 (31%) 165 (32%) 256 0.937
(0.748, 1.174)		 0.56981 0.92681
A/G 151 (52%) 266 (52%) 417
G/G 50 (17%) 84 (16%) 134
26 SEZ6L_MG_444 rs688034 22 100.0% C/C 167 (56%) 282 (54%) 449 0.933
(0.726, 1.199)		 0.58905 0.92681
C/T 108 (36%) 207 (40%) 315
T/T 22 (7%) 29 (6%) 51
27 9P21_3_MG_420 rs10738610 9 99.9% A/A 95 (32%) 154 (30%) 249 1.059
(0.852, 1.318)		 0.60449 0.92681
A/C 149 (50%) 257 (50%) 406
C/C 53 (18%) 106 (21%) 159
28 SMAD3_MG_452 rs17228212 15 99.3% C/C 15 (5%) 34 (7%) 49 0.936
(0.723, 1.212)		 0.61788 0.92681
C/T 96 (33%) 192 (37%) 288
T/T 182 (62%) 290 (56%) 472
29 MTHFD1L_MG_445 rs6922269 6 99.9% A/A 18 (6%) 29 (6%) 47 1.045
(0.812, 1.346)		 0.73015 0.97194
A/G 103 (35%) 194 (37%) 297
G/G 175 (59%) 295 (57%) 470
30 FMN2_MG_450 rs1456648 1 98.8% G/G 3 (1%) 13 (3%) 16 0.951
(0.700, 1.290)		 0.74534 0.97194
G/T 78 (27%) 126 (25%) 204
T/T 210 (72%) 375 (73%) 585
31 SMAD3_MG_431 rs1866317 15 100.0% C/C 5 (2%) 11 (2%) 16 1.047
(0.768, 1.426)		 0.77224 0.97194
C/G 78 (26%) 111 (21%) 189
G/G 214 (72%) 396 (76%) 610
32 10Q11_21_MG_439 rs501120 10 97.7% C/C 12 (4%) 13 (3%) 25 0.957
(0.708, 1.293)		 0.77463 0.97194
C/T 60 (21%) 125 (25%) 185
T/T 215 (75%) 371 (73%) 586
33 12Q12_MG_448 rs7970834 12 99.6% G/G 89 (30%) 146 (28%) 235 1.021
(0.815, 1.280)		 0.85418 0.97194
G/T 151 (51%) 280 (54%) 431
T/T 57 (19%) 89 (17%) 146
34 10Q11_21_MG_429 rs1746049 10 99.9% C/C 230 (77%) 399 (77%) 629 0.971
(0.705, 1.336)		 0.85483 0.97194
C/T 60 (20%) 108 (21%) 168
T/T 7 (2%) 10 (2%) 17
35 2Q36_3_MG_433 rs2972147 2 99.3% C/C 116 (40%) 222 (43%) 338 0.983
(0.783, 1.233)		 0.88137 0.97194
C/T 143 (49%) 228 (44%) 371
T/T 33 (11%) 67 (13%) 100
36 10Q11_21_MG_440 rs559580 10 99.8% C/C 12 (4%) 13 (3%) 25 0.983
(0.734, 1.318)		 0.91034 0.97194
C/T 70 (24%) 135 (26%) 205
T/T 213 (72%) 370 (71%) 583
37 9P21_3_MG_437 rs496892 9 99.1% C/C 76 (26%) 136 (27%) 212 1.011
(0.814, 1.256)		 0.91947 0.97194
C/T 154 (52%) 258 (50%) 412
T/T 66 (22%) 118 (23%) 184
38 10Q11_21_MG_458 rs622472 10 99.0% A/A 210 (72%) 368 (71%) 578 1.013
(0.756, 1.356)		 0.93140 0.97194
A/C 70 (24%) 133 (26%) 203
C/C 12 (4%) 14 (3%) 26
39 9P21_3_MG_451 rs1537378 9 98.8% A/A 36 (12%) 69 (13%) 105 1.007
(0.799, 1.270)		 0.94972 0.97194
A/G 151 (52%) 265 (51%) 416
G/G 102 (35%) 182 (35%) 284
40 10Q11_21_MG_443 rs687175 10 99.8% C/C 12 (4%) 13 (3%) 25 0.992
(0.741, 1.328)		 0.95650 0.97194
C/T 71 (24%) 135 (26%) 206
T/T 214 (72%) 368 (71%) 582
41 10Q11_21_MG_456 rs513391 10 99.4% A/A 211 (72%) 369 (71%) 580 1.008
(0.752, 1.352)		 0.95679 0.97194
A/C 70 (24%) 135 (26%) 205
C/C 12 (4%) 13 (3%) 25
42 10Q11_21_MG_428 rs1746048 10 100.0% C/C 214 (72%) 370 (71%) 584 1.005
(0.751, 1.346)		 0.97194 0.97194
C/T 71 (24%) 135 (26%) 206
T/T 12 (4%) 13 (3%) 25

Updated on 2008-12-08