Background
Methods
Subjects
Body measurements
Genomic DNA extraction and genotyping
SNP | Rs number | Chromosome | Functional consequence | Position | Probe sequence |
---|---|---|---|---|---|
C1341T | rs3856806 | 3 | Intron variant | 12,415,557 | 5′-GGTTGACACAGAGATGCCATTCTGG[C/G] CCACCAACTTTGGGATCAGCTCCGT-3′ |
Intron A>G | rs709158 | 3 | Intron variant | 12,403,176 | 5′-AGATACGGGGGAGGAAATTCACTGG[A/G] TTTTACAATATATTTTTCAAGGCAA-3′ |
Pro12Ala | rs1805192 | 3 | Missense | 12,361,238 | 5′-ACCTCAGACAGATTGTCACGGAACA[C/T] GTGCAGCTACTGCAGGTGATCAAGA-3′ |
Intron C>T | rs4684847 | 3 | Intron variant | 12,326,337 | 5′-ATTTATTTAAATCATCTCTAATTCT[C/T] ACAACTCCGAAAAGATAAGAAAACA-3′ |
Diagnostic criteria
Statistical analysis
Results
Variables | T2DM cases group (n = 647) | Control group (n = 650) |
p values |
---|---|---|---|
Age (years) | 56.7 ± 14.8 | 55.4 ± 14.2 | 0.107 |
Males N (%) | 310 (47.9) | 296 (45.5) | 0.391 |
Smoke N (%) | 153 (23.6) | 174 (26.8) | 0.257 |
Alcohol consumption N (%) | 144 (22.2) | 136 (20.9) | 0.559 |
High fat diet N (%) | 106 (16.4) | 114 (17.5) | 0.579 |
Low fiber diet N (%) | 118 (18.2) | 96 (14.8) | 0.092 |
WC (cm) | 89.1 ± 15.8 | 86.8 ± 16.5 | 0.010 |
BMI (kg/m2) | 25.8 ± 6.8 | 23.3 ± 6.6 | <0.001 |
TG (mmol/l) | 2.1 ± 0.67 | 1.8 ± 0.70 | <0.001 |
TC (mmol/l) | 5.3 ± 1.2 | 4.7 ± 1.1 | <0.001 |
HDL (mmol/l) | 1.21 ± 0.33 | 1.32 ± 0.27 | <0.001 |
SNPs | Genotypes and Alleles | Frequencies N(%) | OR (95% CI)a
|
p values | HWE test | |
---|---|---|---|---|---|---|
Case (n = 647) | Control (n = 650) | |||||
rs3856806 | CC | 322 (49.8) | 397 (61.1) | 1.00 | <0.001 | 0.379 |
CT | 256 (39.6) | 217 (33.4) | 1.12 (1.06–1.58) | |||
TT | 69 (10.7) | 36 (5.5) | 1.93 (1.34–2.71) | |||
CT + TT | 325 (50.2) | 253 (38.9) | 1.25 (1.17–1.76) | <0.001 | ||
C | 900 (69.6) | 1011 (77.8) | <0.001 | |||
T | 394 (30.4) | 289 (22.2) | ||||
rs709158 | AA | 341 (52.7) | 373 (57.4) | 1.00 | 0.128 | 0.165 |
AG | 243 (37.6) | 230 (35.4) | 1.06 (0.95–1.37) | |||
GG | 63 (9.7) | 47 (7.2) | 1.10 (0.86–1.61) | |||
AG + GG | 306 (47.3) | 277 (42.6) | 1.07 (0.92–1.43) | 0.090 | ||
A | 925 (71.5) | 976 (75.1) | 0.039 | |||
G | 369 (28.5) | 324 (24.9) | ||||
rs1805192 | CC | 330 (51.0) | 406 (62.5) | 1.00 | <0.001 | 0.385 |
CG | 262 (40.5) | 220 (33.8) | 1.42 (1.61–1.84) | |||
GG | 55 (8.5) | 24 (3.7) | 2.13 (1.72–2.93) | |||
CG + GG | 317 (49.0) | 244 (37.5) | 1.76 (1.45–2.06) | <0.001 | ||
C | 922 (71.2) | 1032 (79.4) | <0.001 | |||
G | 372 (28.8) | 268 (20.6) | ||||
rs4684847 | CC | 346 (53.5) | 379 (58.3) | 1.00 | 0.203 | 0.277 |
CT | 250 (38.6) | 228 (35.1) | 1.08 (0.91–1.36) | |||
TT | 51 (7.9) | 43 (6.6) | 1.04 (0.82–1.53) | |||
CT + TT | 301 (46.5) | 271 (41.7) | 1.07 (0.89–1.39) | 0.080 | ||
C | 942 (72.8) | 986 (75.8) | 0.076 | |||
T | 352 (27.2) | 314 (24.2) |
Locus no. | Best combination | Cross-validation consistency | Testing accuracy | p values* |
---|---|---|---|---|
2 | rs1805192 Obesity | 10/10 | 0.6217 | 0.0107 |
3 | rs1805192 rs3856806 Obesity | 9/10 | 0.5577 | 0.1719 |
4 | rs1805192 rs3856806 rs709158 Obesity | 8/10 | 0.5590 | 0.0547 |
5 | rs1805192 rs3856806 rs709158 rs4684847 Obesity | 7/10 | 0.4958 | 0.3770 |
Rs1805192 | Obesity | OR (95% CI)a
|
p values |
---|---|---|---|
CC | No | 1.00 | – |
CG or GG | No | 1.21 (1.08–1.47) | 0.020 |
CC | Yes | 1.52 (1.13–1.93) | <0.001 |
CG or GG | Yes | 2.40 (1.68–3.63) | <0.001 |