Skip to main content

Table 1 Genotypes and alleles frequencies of vitamin D pathway genes in PTB patients and normal controls

From: Association of vitamin D pathway genes polymorphisms with pulmonary tuberculosis susceptibility in a Chinese population

SNP Analyze model PTB (N = 490) n (%) Control (N = 489) n (%) P value * OR (95% CI)
CYP24A1
 rs2248359 Genotypes TT 73 (14.90) 66 (13.50) 0.660 0.941 (0.717, 1.235)
   CT 235 (47.96) 232 (47.44) 0.454 0.862 (0.583, 1.272)
   CC 182 (37.14) 191 (39.06) Reference
  Alleles T 381 (38.88) 364 (37.22) 0.450 0.932 (0.777, 1.119)
   C 599 (61.12) 614 (62.78) Reference
  Dominant model CC 182 (37.14) 191 (39.06) 0.537 1.031 (0.935, 1.138)
   CT+TT 308 (62.86) 298 (60.94) Reference
  Recessive model TT 73 (14.90) 66 (13.50) 0.530 0.984 (0.935, 1.035)
   CT+CC 417 (85.10) 423 (86.50) Reference
 rs2296241 Genotypes AA 81 (16.53) 83 (16.97) 0.972 1.007 (0.693, 1.462)
   GA 242 (49.39) 236 (48.26) 0.763 0.958 (0.725, 1.266)
   GG 167 (34.08) 170 (34.77) Reference
  Alleles A 404 (41.22) 402 (41.10) 0.957 1.003 (0.902, 1.115)
   G 576 (58.78) 576 (58.90) Reference
  Dominant model GG 167 (34.08) 170 (34.77) 0.822 0.980 (0.825, 1.165)
   AA+GA 323 (65.92) 319 (65.23) Reference
  Recessive model AA 81 (16.53) 83 (16.97) 0.853 1.005 (0.950, 1.063)
   GG+GA 409 (83.47) 406 (83.03) Reference
 rs927650 Genotypes TT 37 (7.55) 32 (6.54) 0.704 0.950 (0.729, 1.238)
   TC 186 (37.96) 182 (37.22) 0.495 0.840 (0.508, 1.388)
   CC 267 (54.59) 275 (56.24) Reference
  Alleles T 260 (26.53) 246 (25.15) 0.486 0.982 (0.932, 1.034)
   C 720 (73.47) 732 (74.85) Reference
  Dominant model CC 267 (54.48) 275 (56.24) 0.582 1.040 (0.904, 1.196)
   TT+TC 223 (45.51) 214 (43.76) Reference
  Recessive model TT 37 (7.55) 32 (6.54) 0.538 0.989 (0.956, 1.024)
   CC+TC 453 (92.45) 457 (93.46) Reference
 rs6013897 Genotypes AA 8 (1.63) 15 (3.07) 1.150 1.897 (0.794, 4.532)
   TA 135 (27.55) 131 (26.79) 0.898 0.982 (0.740, 1.303)
   TT 347 (70.82) 343 (70.14) Reference
  Alleles A 151 (15.41) 161 (16.46) 0.524 1.013 (0.974, 1.052)
   T 829 (84.59) 817 (83.54) Reference
  Dominant model TT 347 (70.82) 343 (70.14) 0.817 0.977 (0.805, 1.186)
   AA+TA 143 (29.18) 146 (29.86) Reference
  Recessive model AA 8 (1.63) 15 (3.07) 0.138 1.015 (0.995, 1.035)
   TT+TA 482 (98.37) 474 (96.93) Reference
CYP27A1   
 rs17470271 Genotypes TT 2 (0.41) 6 (1.23) 0.407 0.861 (0.605, 1.225)
   AT 78 (15.92) 68 (13.91) 0.185 2.964 (0.595, 14.770)
   AA 410 (83.67) 415 (84.87) Reference
  Alleles T 82 (8.37) 80 (8.18) 0.880 0.998 (0.972, 1.025)
   A 898 (91.63) 898 (91.82) Reference
  Dominant model AA 410 (83.67) 415 (84.87) 0.608 1.079 (0.807, 1.442)
   TT+AT 80 (16.33) 74 (15.13) Reference
  Recessive model TT 2 (0.41) 6 (1.23) 0.155 0.333 (0.067, 1.640)
   AA+AT 488 (99.59) 483 (98.77) Reference
 rs933994 Genotypes TT 17 (3.47) 10 (2.05) 0.159 0.565 (0.255, 1.251)
   CT 132 (26.94) 124 (25.36) 0.482 0.902 (0.677, 1.202)
   CC 341 (69.59) 355 (72.60) Reference
  Alleles T 166 (16.94) 144 (14.72) 0.179 0.974 (0.937, 1.012)
   C 814 (83.06) 834 (85.28) Reference
  Dominant model CC 341 (69.59) 355 (72.60) 0.300 1.110 (0.911, 1.351)
   TT+CT 149 (30.41) 134 (27.40) Reference
  Recessive model TT 17 (3.47) 10 (2.05) 0.174 0.985 (0.965, 1.006)
   CC+CT 473 (96.53) 479 (97.95) Reference
 rs4646536 Genotypes AA 65 (13.27) 67 (13.70) 0.851 0.963 (0.651, 1.425)
   AG 226 (46.12) 209 (42.74) 0.288 0.864 (0.660, 1.131)
   GG 199 (40.61) 213 (43.56) Reference
  Alleles A 356 (36.33) 343 (35.07) 0.562 0.981 (0.918, 1.048)
   G 624 (63.67) 635 (64.93) Reference
  Dominant model GG 199 (40.61) 213 (43.56) 0.351 1.052 (0.946, 1.171)
   AA+AG 291 (59.39) 276 (56.44) Reference
  Recessive model AA 65 (13.27) 67 (13.70) 0.842 0.968 (0.705, 1.330)
   GG+AG 425 (86.73) 422 (86.30) Reference
CYP2R1  
 rs12794714 Genotypes AA 67 (13.67) 55 (11.25) 0.222 0.775 (0.514, 1.167)
   GA 239 (48.78) 239 (48.88) 0.673 0.944 (0.721, 1.236)
   GG 184 (37.55) 195 (39.88) Reference
  Alleles A 373 (38.06) 349 (35.69) 0.276 0.963 (0.900, 1.031)
   G 607 (61.94) 629 (64.31) Reference
  Dominant model GG 184 (37.55) 195 (39.88) 0.455 1.039 (0.940, 1.147)
   AA+GA 306 (62.45) 294 (60.12) Reference
  Recessive model AA 67 (13.67) 55 (11.25) 0.251 0.973 (0.928, 1.020)
   GG+GA 423 (86.33) 434 (88.75) Reference
 rs10741657 Genotypes AA 72 (14.69) 68 (13.91) 0.856 1.036 (0.704, 1.526)
   AG 215 (43.88) 236 (48.26) 0.180 1.204 (0.918, 1.581)
   GG 203 (41.43) 185 (37.83) Reference
  Alleles A 359 (36.63) 372 (38.04) 0.521 1.023 (0.955, 1.095)
   G 621 (63.37) 606 (61.96) Reference
  Dominant model GG 203 (41.43) 185 (37.83) 0.250 0.942 (0.851, 1.043)
   AA+AG 287 (58.57) 304 (62.17) Reference
  Recessive model AA 72 (14.69) 68 (13.91) 0.725 1.057 (0.777, 1.436)
   GG+AG 418 (85.31) 421 (86.09) Reference
 rs7935792 Genotypes CC 10 (2.04) 6 (1.23) 0.286 0.574 (0.206, 1.594)
   AC 111 (22.65) 97 (19.84) 0.252 0.835 (0.614, 1.136)
   AA 369 (75.31) 386 (78.94) Reference
  Alleles C 131 (13.67) 109 (11.15) 0.134 0.975 (0.943, 1.008)
   A 849 (86.63) 869 (88.85) Reference
  Dominant model AA 369 (75.31) 386 (78.94) 0.176 1.172 (0.931, 1.477)
   CC+AC 121 (24.69) 103 (21.06) Reference
  Recessive model CC 10 (2.04) 6 (1.23) 0.315 0.992 (0.976, 1.008)
   AA+AC 480 (97.96) 483 (98.77) Reference
 rs1562902 Genotypes CC 84 (17.14) 86 (17.59) 0.799 1.049 (0.724, 1.521)
   CT 242 (49.39) 243 (49.69) 0.841 1.029 (0.777, 1.364)
   TT 164 (33.47) 160 (32.72) Reference
  Alleles C 410 (41.84) 415 (42.43) 0.789 1.010 (0.937, 1.090)
   T 570 (58.16) 563 (57.57) Reference
  Dominant model TT 164 (33.47) 160 (32.72) 0.803 0.989 (0.905, 1.080)
   CC+CT 326 (66.53) 329 (67.28) Reference
  Recessive model CC 84 (17.14) 86 (17.59) 0.854 1.005 (0.949, 1.065)
   TT+CT 406 (82.86) 403 (82.41) Reference
GC
 rs7041 Genotypes CC 23 (4.69) 31 (6.34) 0.203 1.443 (0.821, 2.537)
   AC 178 (36.33) 188 (38.45) 0.362 1.131 (0.868, 1.472)
   AA 289 (58.98) 270 (55.22) Reference
  Alleles C 224 (22.86) 250 (25.56) 0.162 1.036 (0.986, 1.090)
   A 756 (77.14) 728 (74.44) Reference
  Dominant model AA 289 (58.98) 270 (55.22) 0.234 0.916 (0.792, 1.059)
   CC+AC 201 (41.02) 219 (44.78) Reference
  Recessive model CC 23 (4.69) 31 (6.34) 0.259 1.018 (0.987, 1.049)
   AA+AC 467 (95.31) 458 (93.66) Reference
 rs3733359 Genotypes AA 50 (10.20) 53 (10.84) 0.238 1.296 (0.843, 1.994)
   GA 204 (41.63) 243 (49.69) 0.006 1.457 (1.116, 1.901)
   GG 236 (48.16) 193 (39.47) Reference
  Alleles A 304 (31.02) 349 (35.69) 0.029 1.073 (1.007, 1.142)
   G 676 (68.98) 629 (64.31) Reference
  Dominant model GG 236 (48.16) 193 (39.47) 0.006 0.856 (0.766, 0.957)
   AA+GA 254 (51.84) 296 (60.53) Reference
  Recessive model AA 50 (10.20) 53 (10.84) 0.746 1.007 (0.985, 1.051)
   GG+GA 440 (89.80) 436 (89.16) Reference
 rs16847024 Genotypes TT 13 (2.65) 11 (2.25) 0.889 0.943 (0.417, 2.134)
   CT 99 (20.20) 139 (28.43) 0.003 1.566 (1.164, 2.106)
   CC 378 (77.14) 339 (69.32) Reference
  Alleles T 125 (12.76) 161 (16.46) 0.020 0.775 (0.624, 0.962)
   C 855 (87.24) 817 (83.54) Reference
  Dominant model CC 378 (77.14) 339 (69.32) 0.006 1.113 (1.031, 1.201)
   TT+CT 112 (22.86) 150 (30.68) Reference
  Recessive model TT 13 (2.65) 11 (2.25) 0.583 0.996 (0.976, 1.016)
   CC+CT 477 (97.35) 478 (97.75) Reference
 rs4588 Genotypes TT 43 (8.78) 53 (10.84) 0.873 1.037 (0.664, 1.620)
   GT 256 (52.24) 209 (42.74) 0.006 0.687 (0.527, 0.896)
   GG 191 (38.98) 227 (46.42) Reference
  Alleles T 342 (34.90) 315 (32.21) 0.208 1.083 (0.956, 1.228)
   G 638 (65.10) 663 (67.79) Reference
  Dominant model GG 191 (38.98) 227 (46.42) 0.019 0.840 (0.726, 0.972)
   TT+GT 299 (61.02) 262 (53.58) Reference
  Recessive model TT 143 (29.18) 53 (10.84) 0.278 1.023 (0.982, 1.066)
   GG+GT 447 (91.22) 436 (89.16) Reference
DHCR7
 rs12785878 Genotypes TT 108 (22.04) 102 (20.86) 0.814 1.044 (0.730, 1.493)
   GT 235 (47.96) 254 (51.94) 0.236 1.195 (0.890, 1.603)
   GG 147 (30.00) 133 (27.20) Reference
  Alleles T 451 (46.02) 458 (46.83) 0.719 1.015 (0.935, 1.103)
   G 529 (53.98) 520 (53.17) Reference
  Dominant model GG 147 (30.00) 133 (27.20) 0.332 0.962 (0.888, 1.041)
   TT+GT 343 (70.00) 356 (72.80) Reference
  Recessive model TT 108 (22.04) 102 (20.86) 0.652 1.057 (0.831, 1.343)
   GG+GT 382 (77.96) 387 (79.14) Reference
 rs3829251 Genotypes AA 48 (9.80) 42 (8.59) 0.363 0.811 (0.516, 1.274)
   GA 215 (4.88) 202 (41.31) 0.302 0.871 (0.669, 1.133)
   GG 227 (46.33) 245 (50.10) Reference
  Alleles A 311 (31.73) 286 (29.24) 0.231 0.965 (0.910, 1.023)
   G 669 (68.27) 692 (70.76) Reference
  Dominant model GG 227 (46.33) 245 (50.10) 0.237 1.076 (0.953, 1.214)
   AA+GA 263 (53.67) 244 (49.90) Reference
  Recessive model AA 48 (9.80) 42 (8.59) 0.513 0.987 (0.948, 1.027)
   GG+GA 442 (90.20) 447 (91.41) Reference
  1. *The P values are not corrected for multiple testing, Bonferroni corrected P = 0.0167 (0.05/3)