SP110 Polymorphisms Are Genetic Markers for Vulnerability to Latent and Active Tuberculosis Infection in Taiwan
Table 2
Allele frequencies of polymorphisms in SP110 in TB patients, LTBI cases, and healthy controls.
(a) Allele frequencies in LTBI cases and healthy controls and odds ratio estimates for LTBI
SNP ID
Position1
Location2
HWEp
Alleles
LTBI (%)
Health (%)
OR (95% CI)
value
rs7580912
230216690
Intron 2-3
0.1113
A
48 (40)
165 (30.4)
1.52 (1.01-2.39)
0.0426
G
72 (60)
377 (69.6)
rs7580900
230216669
Intron 2-3
0.5446
A
67 (52.3)
214 (39.5)
1.68 (1.14-2.48)
0.008
G
61 (47.7)
328 (60.5)
rs11556887
230212961
Exon 4
0.0593
C
113 (88.3)
476 (87.8)
0.96 (0.53-1.74)
0.8862
T
15 (11.7)
66 (12.2)
rs9061
230212395
Exon 5
0.1272
G
118 (90.8)
427 (79.4)
0.39 (0.21-0.73)
0.0026
A
12 (9.2)
111 (20.6)
rs3820974
230211574
Intron 5-6
0.8257
C
93 (71.5)
366 (67.5)
0.83 (0.54-1.26)
0.3774
A
37 (28.5)
176 (32.5)
rs1365776
230207994
Exon 8
0.4341
A
111 (91)
479 (89.7)
0.86 (0.44-1.70)
0.6708
G
11 (9)
55 (10.3)
rs41309108
230201006
Intron 9-10
0.0333
T
105 (80.8)
415 (76.6)
0.78 (0.48-1.26)
0.3039
A
25 (19.2)
127 (23.4)
rs2241525
230178086
Intron 13-14
0.451
G
30 (24.6)
93 (17.4)
1.55 (0.97-2.47)
0.067
A
92 (75.4)
441 (82.6)
rs1135791
230177560
Exon 14
0.4826
T
107 (89.2)
472 (87.4)
0.76 (0.41-1.43)
0.5952
C
13 (10.8)
68 (12.6)
rs10498244
230173117
Intron 14-15
0.5064
A
95 (89.6)
459 (86.6)
0.75 (0.38-1.47)
0.3972
G
11 (10.4)
71 (13.4)
1NCBI Reference Sequence: NC_000002.12. 2Based on SP110c (NCBI Reference Sequence: NM_080424.2). HWE: Hardy-Weinberg equilibrium; OR: odds ratio; CI: confidence interval; ORs are adjusted for gender. The significant ORs are shown in italic. OR remains significant after Bonferroni correction.
(b) Allele frequencies in TB patients and healthy controls and odds ratio estimates for TB
SNP ID
Position1
Location2
HWEp
Alleles
LTBI (%)
Health (%)
OR (95% CI)
value
rs7580912
230216690
Intron 2-3
0.9813
A
201 (33.6)
165 (30.4)
1.16 (0.91-1.49)
0.2524
G
397 (66.4)
377 (69.6)
rs7580900
230216669
Intron 2-3
0.8338
A
251 (42)
214 (39.5)
1.11 (0.88-1.41)
0.393
G
347 (58)
328 (60.5)
rs11556887
230212961
Exon 4
0.7296
C
543 (90.8)
476 (87.8)
0.73 (0.50-1.07)
0.1028
T
55 (9.2)
66 (12.2)
rs9061
230212395
Exon 5
0.0162
G
485 (81.6)
427 (79.4)
0.86 (0.64-1.16)
0.3326
A
109 (18.4)
111 (20.6)
rs3820974
230211574
Intron 5-6
0.9602
C
195 (32.6)
17 (32.5)
1.01 (0.79-1.29)
0.9609
A
403 (67.4)
366 (67.5)
rs1365776
230207994
Exon 8
0.0396
A
67 (11.2)
55 (10.3)
1.10 (0.75-1.59)
0.6242
G
531 (88.8)
479 (89.7)
rs41309108
230201006
Intron 9-10
0.0393
T
463 (77.4)
415 (76.6)
0.95 (0.72-1.26)
0.7314
A
135 (22.6)
127 (23.4)
rs2241525
230178086
Intron 13-14
0.102
G
495 (83.6)
441 (82.6)
0.93 (0.68-1.27)
0.6447
A
97 (16.4)
93 (17.4)
rs1135791
230177560
Exon 14
0.3517
T
92 (15.4)
68 (12.6)
1.28 (0.92-1.80)
0.176
C
506 (84.6)
472 (87.4)
rs10498244
230173117
Intron 14-15
0.5808
A
88 (14.7)
71 (13.4)
1.13 (0.81-1.59)
0.525
G
510 (85.3)
459 (86.6)
1NCBI Reference Sequence: NC_000002.12. 2Based on SP110c (NCBI Reference Sequence: NM_080424.2). HWE: Hardy-Weinberg equilibrium; OR: odds ratio; CI: confidence interval; ORs are adjusted for gender.
(c) Allele frequencies in TB patients and LTBI cases and odds ratio estimates for TB
SNP ID
Position1
Location2
HWEp
Alleles
LTBI (%)
Health (%)
OR (95% CI)
value
rs7580912
230216690
Intron 2-3
0.7351
A
397 (66.4)
72 (60)
0.76 (0.51-1.14)
0.1797
G
201 (33.6)
48 (40)
rs7580900
230216669
Intron 2-3
0.9968
A
347 (58)
61 (47.7)
0.66 (0.45-0.97)
0.0319
G
251 (42)
67 (52.3)
rs11556887
230212961
Exon 4
0.8656
C
543 (90.8)
113 (88.3)
0.76 (0.42-1.40)
0.3804
T
55 (9.2)
15 (11.7)
rs9061
230212395
Exon 5
0.0995
G
109 (18.4)
12 (9.2)
2.21 (1.18-4.15)
0.0116
A
485 (81.6)
118 (90.8)
rs3820974
230211574
Intron 5-6
0.8727
C
195 (32.6)
37 (28.5)
1.22 (0.80-1.85)
0.3577
A
403 (67.4)
93 (71.5)
rs1365776
230207994
Exon 8
0.028
A
67 (11.2)
11 (9)
1.27 (0.65-2.49)
0.4786
G
531 (88.8)
111 (91)
rs41309108
230201006
Intron 9-10
0.2174
T
135 (22.6)
25 (19.2)
1.22 (0.76-1.97)
0.4039
A
463 (77.4)
105 (80.8)
rs2241525
230178086
Intron 13-14
0.1275
G
495 (83.6)
92 (75.4)
0.60 (0.38-0.96)
0.0309
A
97 (16.4)
30 (24.6)
rs1135791
230177560
Exon 14
0.3733
T
92 (15.4)
13 (10.8)
1.50 (0.81-2.77)
0.1979
C
506 (84.6)
107 (89.2)
rs10498244
230173117
Intron 14-15
0.8897
A
88 (14.7)
11 (10.4)
1.49 (0.77-2.89)
0.2363
G
510 (85.3)
95 (89.6)
1NCBI Reference Sequence: NC_000002.12. 2Based on SP110c (NCBI Reference Sequence: NM_080424.2). HWE: Hardy-Weinberg equilibrium; OR: odds ratio; CI: confidence interval; ORs are adjusted for gender. The significant ORs are shown in italic.
