| Literature DB >> 28969088 |
Jianzhong Wang1,2, Xugang Shi3, Hua Yang3, Jieli Du2, Yongri Ouyang1, Hong Wang1, Tianbo Jin1,3, Chao Chen1.
Abstract
The study aimed to evaluate the association between MMP gene superfamily and alcohol-induced osteonecrosis of femoral head (alcohol-induced ONFH) risk given its high prevalence, poor therapeutic effect, and serious clinical prognosis. 308 subjects (mean age, 49.47 years; males, 64.0%) who participated in our control group and 300 alcohol-induced ONFH patients (mean age, 43.29 years; males, 99.7%) formed the case group was enrolled to estimate by statistical analysis. We selected 23 single nucleotide polymorphisms (SNPs) from MMPs, and performed the chi-squared test, Fisher's exact test, t-test and genetic model analyses. From the result, rs243849 which located in MMP2 were 1.355 (1.014-1.811), 1.34 (1.01-1.78) in allele model and log-addictive model, respectively. And the p-value of rs243849 in Cochran-Armitage trend test is 0.044. Unfortunately, the similar results of these SNPs were not observed when adjusted by gender and age. Our study is not enough to supply a positive result to benefit for alcohol-induced ONFH clinical prevention, but guide out a new direction for further experiment.Entities:
Keywords: Han population; MMPs; SNPs; alcohol-induced ONFH
Year: 2017 PMID: 28969088 PMCID: PMC5610020 DOI: 10.18632/oncotarget.16380
Source DB: PubMed Journal: Oncotarget ISSN: 1949-2553
Basic information of SNPs examined in the MMPs genes
| SNP rs# | Chr | Position | Band | Gene | Allele | Case | Control | Case | Control | Cochran-A Trend | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| A | B | AA | AB | BB | AA | AB | BB | MAF | MAF | |||||||||
| rs14983 | 11 | 102391425 | 11q22.2 | MMP7 | A | G | 20 | 122 | 158 | 20 | 121 | 167 | 0.270 | 0.261 | 0.730 | |||
| rs17352054 | 11 | 102393055 | 11q22.2 | MMP7 | C | A | 5 | 68 | 227 | 5 | 68 | 235 | 0.130 | 0.127 | 0.860 | |||
| rs10502001 | 11 | 102398593 | 11q22.2 | MMP7 | T | C | 20 | 122 | 158 | 20 | 121 | 166 | 0.270 | 0.262 | 0.756 | |||
| rs11568818 | 11 | 102401661 | 11q22.2 | MMP7 | C | T | 4 | 54 | 242 | 2 | 44 | 262 | 0.103 | 0.078 | 0.126 | |||
| rs17098318 | 11 | 102402858 | 11q22.2 | MMP7 | A | G | 4 | 53 | 243 | 2 | 43 | 263 | 0.102 | 0.076 | 0.125 | |||
| rs3740938 | 11 | 102587062 | 11q22.2 | MMP8 | A | G | 14 | 108 | 178 | 14 | 103 | 190 | 0.227 | 0.213 | 0.573 | |||
| rs2012390 | 11 | 102590777 | 11q22.2 | MMP8 | G | A | 20 | 114 | 165 | 19 | 113 | 176 | 0.258 | 0.245 | 0.620 | |||
| rs1940475 | 11 | 102593248 | 11q22.2 | MMP8 | T | C | 43 | 132 | 125 | 35 | 144 | 129 | 0.363 | 0.347 | 0.564 | |||
| rs11225394 | 11 | 102595413 | 11q22.2 | MMP8 | T | C | 0 | 65 | 235 | 0 | 53 | 238 | 0.108 | 0.091 | 0.294 | |||
| rs11225395 | 11 | 102596480 | 11q22.2 | MMP8 | A | G | 40 | 131 | 129 | 34 | 143 | 131 | 0.352 | 0.343 | 0.739 | |||
| rs639752 | 11 | 102707339 | 11q22.2 | MMP3 | C | A | 26 | 135 | 139 | 32 | 146 | 130 | 0.312 | 0.341 | 0.264 | |||
| rs650108 | 11 | 102708787 | 11q22.2 | MMP3 | G | A | 47 | 140 | 112 | 47 | 166 | 94 | 0.391 | 0.423 | 0.244 | |||
| rs520540 | 11 | 102709425 | 11q22.2 | MMP3 | A | G | 26 | 135 | 139 | 32 | 146 | 130 | 0.312 | 0.341 | 0.264 | |||
| rs646910 | 11 | 102709522 | 11q22.2 | MMP3 | A | T | 2 | 42 | 256 | 2 | 46 | 260 | 0.077 | 0.081 | 0.772 | |||
| rs602128 | 11 | 102713465 | 11q22.2 | MMP3 | A | G | 26 | 136 | 137 | 32 | 143 | 130 | 0.314 | 0.339 | 0.343 | |||
| rs679620 | 11 | 102713620 | 11q22.2 | MMP3 | T | C | 26 | 136 | 138 | 33 | 145 | 130 | 0.313 | 0.343 | 0.266 | |||
| rs678815 | 11 | 102713777 | 11q22.2 | MMP3 | G | C | 26 | 134 | 137 | 32 | 146 | 130 | 0.313 | 0.341 | 0.291 | |||
| rs522616 | 11 | 102715048 | 11q22.2 | MMP3 | C | T | 49 | 138 | 113 | 40 | 144 | 123 | 0.393 | 0.365 | 0.309 | |||
| rs1053605 | 16 | 55519607 | 16q12.2 | MMP2 | T | C | 6 | 62 | 232 | 3 | 63 | 242 | 0.123 | 0.112 | 0.542 | |||
| rs243849 | 16 | 55523705 | 16q12.2 | MMP2 | T | C | 17 | 92 | 191 | 9 | 83 | 216 | 0.210 | 0.164 | 0.045 | |||
| rs243847 | 16 | 55523998 | 16q12.2 | MMP2 | C | T | 48 | 134 | 118 | 59 | 140 | 109 | 0.383 | 0.419 | 0.221 | |||
| rs243832 | 16 | 55539191 | 16q12.2 | MMP2 | C | G | 34 | 150 | 116 | 41 | 145 | 122 | 0.363 | 0.369 | 0.848 | |||
| rs7201 | 16 | 55539614 | 16q12.2 | MMP2 | C | A | 12 | 110 | 178 | 18 | 116 | 173 | 0.223 | 0.248 | 0.312 | |||
The HWE and Chi-square test results in allele and genotype model of SNPs
| SNP ID | Allele | HWE | Allele | Genotype | Dominant | Recessive | |||
|---|---|---|---|---|---|---|---|---|---|
| A | B | p | OR | 95% CI | p | p | p | p | |
| rs14983 | A | G | 0.8827 | 1.05 | 0.81-1.35 | 0.73 | 0.93 | 0.70 | 0.93 |
| rs17352054 | C | A | 1 | 1.03 | 0.74-1.44 | 0.86 | 0.98 | 0.86 | 0.78 |
| rs10502001 | T | C | 0.8826 | 1.04 | 0.81-1.34 | 0.76 | 0.94 | 0.73 | 0.94 |
| rs11568818 | C | T | 0.7036 | 1.36 | 0.92-2.02 | 0.12 | 0.35 | 0.15 | 0.66 |
| rs17098318 | A | G | 0.6915 | 1.37 | 0.92-2.04 | 0.12 | 0.35 | 0.15 | 0.66 |
| rs3740938 | A | G | 1 | 1.08 | 0.82-1.42 | 0.58 | 0.81 | 0.52 | 0.95 |
| rs2012390 | G | A | 0.8779 | 1.07 | 0.82-1.38 | 0.62 | 0.88 | 0.63 | 0.79 |
| rs1940475 | T | C | 0.6175 | 1.07 | 0.85-1.36 | 0.56 | 0.52 | 0.96 | 0.27 |
| rs11225394 | T | C | 0.1469 | 1.21 | 0.83-1.78 | 0.32 | 0.31 | 0.29 | 1.00 |
| rs11225395 | A | G | 0.7041 | 1.04 | 0.82-1.32 | 0.74 | 0.63 | 0.91 | 0.39 |
| rs639752 | C | A | 0.3762 | 0.88 | 0.69-1.11 | 0.28 | 0.54 | 0.31 | 0.47 |
| rs650108 | G | A | 0.07913 | 0.88 | 0.7-1.1 | 0.25 | 0.16 | 0.08 | 0.89 |
| rs520540 | A | G | 0.3762 | 0.88 | 0.69-1.11 | 0.28 | 0.54 | 0.31 | 0.47 |
| rs646910 | A | T | 1 | 0.94 | 0.62-1.43 | 0.77 | 0.93 | 0.75 | 0.63 |
| rs602128 | A | G | 0.5228 | 0.89 | 0.7-1.14 | 0.36 | 0.63 | 0.43 | 0.45 |
| rs679620 | T | C | 0.5267 | 0.88 | 0.69-1.11 | 0.28 | 0.53 | 0.35 | 0.39 |
| rs678815 | G | C | 0.3762 | 0.88 | 0.69-1.12 | 0.30 | 0.57 | 0.33 | 0.49 |
| rs522616 | C | T | 0.9022 | 1.13 | 0.9-1.42 | 0.31 | 0.50 | 0.54 | 0.25 |
| rs1053605 | T | C | 0.7803 | 1.12 | 0.79-1.58 | 0.54 | 0.58 | 0.71 | 0.48 |
| rs243849 | T | C | 0.6826 | 1.36 | 1.01-1.81 | 0.04 | 0.11 | 0.09 | 0.09 |
| rs243847 | C | T | 0.2434 | 0.86 | 0.69-1.09 | 0.21 | 0.47 | 0.31 | 0.31 |
| rs243832 | C | G | 0.9028 | 0.98 | 0.77-1.24 | 0.85 | 0.68 | 0.81 | 0.46 |
| rs7201 | C | A | 0.879 | 0.87 | 0.67-1.14 | 0.32 | 0.51 | 0.46 | 0.29 |
Values in bold indicate the SNP, which was significant correlated with alcohol-induced ONFH.
Logistic analyses of SNPs association with alcohol-induced ONFH in without adjustment addition
| SNP | Model | Genotype | Control | Alcohol | OR (95% CI) | p |
|---|---|---|---|---|---|---|
| rs1053605 | Codominant | C/C | 242 (78.6%) | 232 (77.3%) | 1 | 0.57 |
| C/T | 63 (20.4%) | 62 (20.7%) | 1.03 (0.69-1.52) | |||
| T/T | 3 (1%) | 6 (2%) | 2.09 (0.52-8.44) | |||
| Dominant | C/C | 242 (78.6%) | 232 (77.3%) | 1 | 0.71 | |
| C/T-T/T | 66 (21.4%) | 68 (22.7%) | 1.07 (0.73-1.58) | |||
| Recessive | C/C-C/T | 305 (99%) | 294 (98%) | 1 | 0.29 | |
| T/T | 3 (1%) | 6 (2%) | 2.07 (0.51-8.37) | |||
| Overdominant | C/C-T/T | 245 (79.5%) | 238 (79.3%) | 1 | 0.95 | |
| C/T | 63 (20.4%) | 62 (20.7%) | 1.01 (0.68-1.50) | |||
| Log-additive | --- | --- | --- | 1.11 (0.79-1.58) | 0.54 | |
| rs243849 | Codominant | C/C | 216 (70.1%) | 191 (63.7%) | 1 | 0.11 |
| C/T | 83 (26.9%) | 92 (30.7%) | 1.25 (0.88-1.79) | |||
| T/T | 9 (2.9%) | 17 (5.7%) | 2.14 (0.93-4.90) | |||
| Dominant | C/C | 216 (70.1%) | 191 (63.7%) | 1 | 0.09 | |
| C/T-T/T | 92 (29.9%) | 109 (36.3%) | 1.34 (0.95-1.88) | |||
| Recessive | C/C-C/T | 299 (97.1%) | 283 (94.3%) | 1 | 0.092 | |
| T/T | 9 (2.9%) | 17 (5.7%) | 2.00 (0.88-4.55) | |||
| Overdominant | C/C-T/T | 225 (73%) | 208 (69.3%) | 1 | 0.31 | |
| C/T | 83 (26.9%) | 92 (30.7%) | 1.20 (0.84-1.70) | |||
| Log-additive | --- | --- | --- | 1.34 (1.01-1.78) | 0.044 | |
| rs243847 | Codominant | T/T | 109 (35.4%) | 118 (39.3%) | 1 | 0.47 |
| C/T | 140 (45.5%) | 134 (44.7%) | 0.88 (0.62-1.26) | |||
| C/C | 59 (19.2%) | 48 (16%) | 0.75 (0.47-1.19) | |||
| Dominant | T/T | 109 (35.4%) | 118 (39.3%) | 1 | 0.31 | |
| C/T-C/C | 199 (64.6%) | 182 (60.7%) | 0.84 (0.61-1.17) | |||
| Recessive | T/T-C/T | 249 (80.8%) | 252 (84%) | 1 | 0.31 | |
| C/C | 59 (19.2%) | 48 (16%) | 0.80 (0.53-1.22) | |||
| Overdominant | T/T-C/C | 168 (54.5%) | 166 (55.3%) | 1 | 0.85 | |
| C/T | 140 (45.5%) | 134 (44.7%) | 0.97 (0.70-1.33) | |||
| Log-additive | --- | --- | --- | 0.87 (0.70-1.09) | 0.22 | |
| rs243832 | Codominant | G/G | 122 (39.6%) | 116 (38.7%) | 1 | 0.68 |
| G/C | 145 (47.1%) | 150 (50%) | 1.09 (0.77-1.53) | |||
| C/C | 41 (13.3%) | 34 (11.3%) | 0.87 (0.52-1.47) | |||
| Dominant | G/G | 122 (39.6%) | 116 (38.7%) | 1 | 0.81 | |
| G/C-C/C | 186 (60.4%) | 184 (61.3%) | 1.04 (0.75-1.44) | |||
| Recessive | G/G-G/C | 267 (86.7%) | 266 (88.7%) | 1 | 0.46 | |
| C/C | 41 (13.3%) | 34 (11.3%) | 0.83 (0.51-1.35) | |||
| Overdominant | G/G-C/C | 163 (52.9%) | 150 (50%) | 1 | 0.47 | |
| G/C | 145 (47.1%) | 150 (50%) | 1.12 (0.82-1.55) | |||
| Log-additive | --- | --- | --- | 0.98 (0.77-1.24) | 0.85 | |
| rs7201 | Codominant | A/A | 173 (56.4%) | 178 (59.3%) | 1 | 0.51 |
| C/A | 116 (37.8%) | 110 (36.7%) | 0.92 (0.66-1.29) | |||
| C/C | 18 (5.9%) | 12 (4%) | 0.65 (0.30-1.39) | |||
| Dominant | A/A | 173 (56.4%) | 178 (59.3%) | 1 | 0.46 | |
| C/A-C/C | 134 (43.6%) | 122 (40.7%) | 0.88 (0.64-1.22) | |||
| Recessive | A/A-C/A | 289 (94.1%) | 288 (96%) | 1 | 0.29 | |
| C/C | 18 (5.9%) | 12 (4%) | 0.67 (0.32-1.41) | |||
| Overdominant | A/A-C/C | 191 (62.2%) | 190 (63.3%) | 1 | 0.78 | |
| C/A | 116 (37.8%) | 110 (36.7%) | 0.95 (0.69-1.32) | |||
| Log-additive | --- | --- | --- | 0.87 (0.66-1.14) | 0.31 |
Values in bold indicate that the locus has statistically significant.
Figure 1Linkage disequilibrium coefficients (a, |D’|) and (b, r2) of the identified haplotype in the MMP2 gene
Haplotype association with response of rs243849 and rs243847
| Haplotype | Freq. | Case, Control Ratio Counts | Case, Control Fre | Chi | p |
|---|---|---|---|---|---|
| CT | 0.412 | 244.0 : 356.0, 257.0 : 359.0 | 0.407, 0.417 | 0.139 | 0.709 |
| CC | 0.401 | 230.0 : 370.0, 258.0 : 358.0 | 0.383, 0.419 | 1.594 | 0.207 |
| TT | 0.187 | 126.0 : 474.0, 101.0 : 515.0 | 0.210, 0.164 | 4.243 | 0.039 |