| Literature DB >> 32904644 |
Jinjie Yu1, Yunpeng Dong1, Weifeng Tang2, Huiwen Pan2, Lu Lv2, Tao Long2, Qiang Zhou2, Junqing Qi2, Jianchao Liu2, Guowen Ding2, Jun Yin1, Lijie Tan1.
Abstract
BACKGROUND: The TGF-β signal pathways play a key role in the development and promotion of squamous cell carcinoma (SCC). The pathway is mediated by the SMAD family proteins that include SMAD3 and SMAD6. Our study aimed to evaluate the relationship between single nucleotide polymorphism (SNP) of SMAD3/SMAD6 and susceptibility to esophageal squamous cell carcinoma (ESCC) in the Chinese population. PATIENTS AND METHODS: This was a hospital-based case-control study compromised of 1043 ESCC patients and 1315 non-cancer patients. Seven SMAD3/SMAD6 (rs8028147, rs3743343, rs3743342, rs8025774, rs8031440, rs803167, and rs34643453) SNPs were selected and used to evaluate their correlation with ESCC susceptibility. Genetic model tests, stratified analyses, linkage disequilibrium analyses, and haplotype analyses were performed in our study.Entities:
Keywords: SMAD; esophageal squamous cell carcinoma; single nucleotide polymorphism
Year: 2020 PMID: 32904644 PMCID: PMC7457549 DOI: 10.2147/PGPM.S250076
Source DB: PubMed Journal: Pharmgenomics Pers Med ISSN: 1178-7066
Distribution of Selected Demographic Variables and Risk Factors in ESCC Case and Control Groups
| Case Group (n=1043) | Control Group (n=1315) | ||||
|---|---|---|---|---|---|
| Age (years) | |||||
| Mean ± SD | 63.07 ± 7.27 | 62.88 ± 9.74 | 0.607 | ||
| Age (years) | |||||
| <63 | 471 | 45.16% | 636 | 48.37% | 0.121 |
| >63 | 572 | 54.84% | 679 | 51.63% | |
| Gender | |||||
| Male | 758 | 72.67% | 952 | 72.40% | 0.88 |
| Female | 285 | 27.33% | 343 | 26.08% | |
| Smoking status | |||||
| Never | 589 | 56.47% | 964 | 73.31% | <0.001 |
| Ever | 454 | 43.53% | 351 | 26.69% | |
| Alcohol consumption | |||||
| Never | 714 | 68.46% | 1222 | 92.93% | <0.001 |
| Ever | 329 | 31.54% | 93 | 7.07% |
Primary Information of the Selected SNPs
| Genotyped SNP | rs8028147 | rs3743343 | rs3743342 | rs8025774 | rs8031440 | rs8031627 | rs34643453 |
|---|---|---|---|---|---|---|---|
| Ancestral Allele | G | T | C | C | G | G | G |
| Gene | |||||||
| Function | utr variant 5 prime | utr variant 3 prime | utr variant 5 prime | ||||
| Regulome DB Scorea | 4 | 5 | 3a | 4 | 4 | 4 | 4 |
| TFBSb | – | – | – | – | – | – | Y |
| nsSNP | – | – | – | – | – | – | – |
| Chr Pos | 67,125,895 | 67,194,437 | 67,193,329 | 67,190,938 | 67,191,641 | 67,191,781 | 66,702,737 |
| Chromosome | 15 | 15 | 15 | 15 | 15 | 15 | 15x` |
| MAF for Chinese in database(HAPMAP) | G = 0.440 | C = 0.314 | T = 0.453 | T = 0.451 | A = 0.463 | A = 0.451 | A = 0.268 |
| MAF in the | G=0.416 | C=0.317 | T=0.462 | T=0.456 | A=0.461 | A=0.455 | A=0.255 |
| 0.8066 | 0.1688 | 0.7432 | 0.7786 | 0.7641 | 0.8574 | 0.7750 | |
| Genotyping method | LDR | ||||||
| %Genotyping value | 99.02% | 99.02% | 99.02% | 99.02% | 98.98% | 99.02% | 95.59% |
Notes: a; bTFBS, transcription factor binding site ().
Main Effects of Rs8028147 G>A, Rs3743343 T>C, Rs3743342 C>T, Rs8025774 C>T, Rs8031440 G>A, Rs8031627 G>A, Rs3463453 G>A on Risk of ESCC
| Locus | Genotype | Control | Case | Co-Dominant | Dominant | Recessive | Allelic Test | |
|---|---|---|---|---|---|---|---|---|
| OR (95% CI) | OR (95% CI)/ | OR (95% CI)/ | OR (95% CI)/ | |||||
| rs8028147 | GG | 225 | 169 | 1 | 0.854 | 1.050(0.844–1.307) | 1.042(0.878–1.238) | 1.034(0.920–1.163) |
| GA | 641 | 499 | 1.070 (0.839–1.365) | 0.583 | ||||
| AA | 444 | 357 | 1.036(0.822–1.306) | 0.762 | ||||
| rs3743343 | TT | 600 | 498 | 1 | 0.407 | 0.894(0.759–1.053) | 0.957(0.720–1.273) | 0.929(0.820–1.053) |
| TC | 589 | 436 | 0.515(0.673–1.219) | 0.515 | ||||
| CC | 121 | 91 | 0.191(0.751–1.059) | 0.191 | ||||
| rs3743342 | CC | 377 | 243 | 1 | 0.001 | 1.300(1.078–1.568) | 1.360(1.123–1.648) | 1.237(1.102–1.389) |
| TC | 657 | 509 | 1.202(0.986–1.466) | 0.069 | ||||
| TT | 276 | 273 | 1.535(1.216–1.936) | <0.001 | ||||
| rs8025774 | CC | 385 | 253 | 1 | 0.002 | 1.270(1.055–1.528) | 1.371(1.130–1.662) | 1.230(1.096–1.381) |
| TC | 655 | 503 | 1.169(0.960–1.423) | 0.120 | ||||
| TT | 270 | 269 | 1.516(1.203–1.911) | <0.001 | ||||
| rs8031440 | GG | 377 | 250 | 1 | 0.002 | 1.254(1.041–1.510) | 1.379(1.139–1.670) | 1.228(1.094–1.379) |
| GA | 656 | 499 | 1.147(0.941–1.398) | 0.174 | ||||
| AA | 276 | 276 | 1.508(1.197–1.900) | <0.001 | ||||
| rs8031627 | GG | 387 | 252 | 1 | 0.001 | 1.286(1.069–1.548) | 1.384(1.142–1.679) | 1.241(1.106–1.394) |
| GA | 653 | 502 | 1.181(0.970–1.437) | 0.098 | ||||
| AA | 270 | 271 | 1.541(1.223–1.943) | <0.001 | ||||
| rs3464453 | GG | 681 | 578 | 1 | 0.687 | 0.954(0.807–1.127) | 1.084(0.776–1.513) | 0.983(0.859–1.124) |
| GA | 471 | 376 | 0.937(0.787–1.117) | 0.468 | ||||
| AA | 78 | 70 | 1.056(0.751–1.485) | 0.755 | ||||
Stratified Analyses Between Rs3743342 Polymorphism and ESCC Risk by Gender, Age, Smoking Status, and Alcohol Consumption
| Variables | Control/Case | Adjusted OR/ | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| CC | TC | TT | TC+TT | CC | TC | TT | TC+TT | TT vs (TC+CC) | ||
| Gender | ||||||||||
| Male | 283/169 | 476/370 | 189/206 | 665/576 | 1.00 | 1.235/0.105 | 1.838/<0.001 | 1.404/0.006 | 0.624/<0.001 | |
| Female | 94/74 | 181/139 | 87/67 | 268/206 | 1.00 | 0.967/0.863 | 0.970/0.892 | 0.968/0.858 | 1.009/0.962 | |
| Age | ||||||||||
| <63 | 195/123 | 298/231 | 139/112 | 437/343 | 1.00 | 1.276/0.118 | 1.373/0.085 | 1.306/0.068 | 0.849/0.292 | |
| ≥63 | 182/120 | 359/278 | 137/161 | 496/439 | 1.00 | 1.049/0.751 | 1.655/0.004 | 1.215/0.167 | 0.624/0.001 | |
| Smoking Status | ||||||||||
| Never | 277/140 | 473/282 | 210/152 | 683/434 | 1.00 | 1.173/0.218 | 1.438/0.016 | 1.254/0.063 | 0.772/0.037 | |
| Ever | 100/103 | 184/227 | 66/121 | 250/348 | 1.00 | 1.067/0.735 | 1.731/0.018 | 1.237/0.244 | 0.603/0.009 | |
| Alcohol consumption | ||||||||||
| Never | 351/174 | 608/339 | 258/190 | 866/529 | 1.00 | 1.113/0.356 | 1.472/0.004 | 1.220/0.068 | 0.728/0.004 | |
| Ever | 26/69 | 49/170 | 18/83 | 67/253 | 1.00 | 1.279/0.397 | 1.723/0.126 | 1.400/0.224 | 0.687/0.205 | |
Stratified Analyses Between Rs8025774 Polymorphism and ESCC Risk by Gender, Age, Smoking Status, and Alcohol Consumption
| Variables | Control/Case | Adjusted OR/ | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| CC | TC | TT | TC+TT | CC | TC | TT | TC+TT | TT vs (TC+CC) | ||
| Gender | ||||||||||
| Male | 291/174 | 474/367 | 183/204 | 657/571 | 1.00 | 1.224/0.117 | 1.854/<0.001 | 1.397/0.006 | 0.615/<0.001 | |
| Female | 94/79 | 181/136 | 87/65 | 268/201 | 1.00 | 0.888/0.538 | 0.881/0.576 | 0.886/0.503 | 1.052/0.790 | |
| Age | ||||||||||
| <63 | 200/126 | 295/228 | 137/112 | 432/340 | 1.00 | 1.285/0.106 | 1.384/0.077 | 1.316/0.059 | 0.845/0.279 | |
| ≥63 | 185/127 | 360/275 | 133/157 | 493/432 | 1.00 | 0.980/0.893 | 1.572/0.009 | 1.140/0.347 | 0.628/0.001 | |
| Smoking status | ||||||||||
| Never | 282/149 | 472/278 | 206/147 | 678/425 | 1.00 | 1.109/0.417 | 1.357/0.042 | 1.184/0.159 | 0.787/0.057 | |
| Ever | 103/104 | 183/225 | 64/122 | 247/347 | 1.00 | 1.088/0.661 | 1.816/0.010 | 1.272/0.185 | 0.582/0.005 | |
| Alcohol consumption | ||||||||||
| Never | 358/183 | 606/335 | 253/185 | 859/520 | 1.00 | 1.070/0.555 | 1.415/0.009 | 1.172/0.140 | 0.738/0.007 | |
| Ever | 27/70 | 49/168 | 17/84 | 66/252 | 1.00 | 1.291/0.378 | 1.858/0.083 | 1.441/0.184 | 0.640/0.138 | |
Stratified Analyses Between Rs8031440 Polymorphism and ESCC Risk by Gender, Age, Smoking Status, and Alcohol Consumption
| Variables | Control/Case | Adjusted OR/ | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| GG | GA | AA | GA+AA | GG | GA | AA | GA+AA | AA vs (GG+GA) | ||
| Gender | ||||||||||
| Male | 283/172 | 474/364 | 190/209 | 664/573 | 1.00 | 1.200/0.160 | 1.805/<0.001 | 1.371/0.010 | 0.624/<0.001 | |
| Female | 94/78 | 182/135 | 86/67 | 268/202 | 1.00 | 0.886/0.530 | 0.933/0.757 | 0.901/0.565 | 0.992/0.966 | |
| Age | ||||||||||
| <63 | 194/125 | 299/228 | 139/113 | 438/341 | 1.00 | 1.238/0.170 | 1.353/0.100 | 1.274/0.097 | 0.845/0.278 | |
| ≥63 | 183/125 | 357/271 | 137/163 | 494/434 | 1.00 | 0.984/0.916 | 1.600/0.006 | 1.154/0.304 | 0.619/0.001 | |
| Smoking status | ||||||||||
| Never | 277/146 | 473/276 | 210/152 | 683/428 | 1.00 | 1.103/0.445 | 1.383/0.030 | 1.189/0.152 | 0.770/0.036 | |
| Ever | 100/104 | 183/223 | 66/124 | 249/347 | 1.00 | 1.055/0.782 | 1.742/0.016 | 1.232/0.253 | 0.595/0.007 | |
| Alcohol consumption | ||||||||||
| Never | 351/180 | 607/333 | 258/190 | 865/523 | 1.00 | 1.061/0.607 | 1.427/0.008 | 1.170/0.145 | 0.728/0.004 | |
| Ever | 26/70 | 49/166 | 18/86 | 67/252 | 1.00 | 1.236/0.467 | 1.757/0.112 | 1.378/0.247 | 0.658/0.156 | |
Stratified Analyses Between Rs8031627 Polymorphism and ESCC Risk by Gender, Age, Smoking Status, and Alcohol Consumption
| Variables | Control/Case | Adjusted OR/ | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| GG | GA | AA | GA+AA | GG | GA | AA | GA+AA | AA vs (GG+GA) | ||
| Gender | ||||||||||
| Male | 292/173 | 471/366 | 185/206 | 656/572 | 1.00 | 1.244/0.090 | 1.876/<0.001 | 1.421/0.004 | 0.614/<0.001 | |
| Female | 95/79 | 182/136 | 85/65 | 267/201 | 1.00 | 0.895/0.562 | 0.912/0.686 | 0.900/0.561 | 1.021/0.915 | |
| Age | ||||||||||
| <63 | 198/125 | 297/229 | 137/112 | 434/341 | 1.00 | 1.290/0.101 | 1.391/0.074 | 1.321/0.056 | 0.843/0.274 | |
| ≥63 | 189/127 | 356/273 | 133/159 | 489/432 | 1.00 | 1.003/0.982 | 1.628/0.005 | 1.173/0.251 | 0.616/0.001 | |
| Smoking status | ||||||||||
| Never | 282/148 | 472/278 | 206/148 | 678/426 | 1.00 | 1.121/0.372 | 1.385/0.030 | 1.201/0.128 | 0.777/0.044 | |
| Ever | 105/104 | 181/224 | 64/123 | 245/347 | 1.00 | 1.110/0.585 | 1.851/0.008 | 1.299/0.148 | 0.579/0.005 | |
| Alcohol consumption | ||||||||||
| Never | 360/182 | 604/335 | 253/186 | 857/521 | 1.00 | 1.089/0.458 | 1.446/0.006 | 1.194/0.098 | 0.730/0.005 | |
| Ever | 27/70 | 49/167 | 17/85 | 66/252 | 1.00 | 1.284/0.388 | 1.879/0.077 | 1.441/0.184 | 0.630/0.125 | |
Haplotype Frequencies in the Case and Control Group, and Risk of ESCC
| Haplotypes | Case (%) | Control (%) | OR (95% CI) | |
|---|---|---|---|---|
| 4.3 | 4.0 | 1.075 (0.801–1.443) | 0.629 | |
| 10.8 | 12.9 | 0.809 (0.674–0.972) | 0.023 | |
| 2.2 | 3.7 | 0.569 (0.395–0.820) | 0.002 | |
| 8.9 | 9.6 | 0.912 (0.744–1.117) | 0.373 | |
| 8.6 | 6.7 | 1.318 (1.056–1.645) | 0.014 | |
| 23.9 | 21.4 | 1.148 (0.997–1.321) | 0.055 | |
| 3.3 | 4.1 | 0.779 (0.568–1.067) | 0.119 | |
| 11.3 | 10.4 | 1.100 (0.911–1.328) | 0.323 | |
| 5.9 | 6.7 | 0.872 (0.684–1.111) | 0.267 | |
| 4.9 | 4.4 | 1.117 (0.846–1.476) | 0.434 | |
| 13.1 | 12.9 | 1.018 (0.855–1.213) | 0.838 |