| Literature DB >> 33116765 |
Yunfan Ma1, Yinxi Zhou1, Huixin Zhang1, Xiaoan Su1.
Abstract
PURPOSE: This study aimed to evaluate the associations between immune response-related genes - STAT4, IL8RA and CCR7 polymorphisms and risk of lung cancer.Entities:
Keywords: CCR7; Chemokine (C-C motif) receptor 7; IL8RA; SNPs; STAT4; interleukin 8-receptor alpha; lung cancer; signal transducers and activators of transcription 4; single nucleotide polymorphisms
Year: 2020 PMID: 33116765 PMCID: PMC7585862 DOI: 10.2147/PGPM.S271983
Source DB: PubMed Journal: Pharmgenomics Pers Med ISSN: 1178-7066
The Basic Characteristics of the Participants
| Variables | Case (%) (n = 350) | Control (%) (n = 350) | ||
|---|---|---|---|---|
| Sex (%) | 0.143 | 0.705 | ||
| Male | 180 (51.4) | 175 (50.0) | ||
| Female | 170 (48.6) | 175 (50.0) | ||
| Age (mean ±SD), years | 56.9±10.9 | 58.1±9.8 | −1.513 | 0.131 |
| Smoking (%) | 0.281 | 0.596 | ||
| Yes | 187 (53.4) | 180 (51.4) | ||
| No | 163 (46.6) | 170 (48.6) |
The Primers Used in This Study
| SNP_ID | 1st-PCRP | 2nd-PCRP | UEP_SEQ |
|---|---|---|---|
| rs1400656 | ACGTTGGATGATAATATAAAAAAGCCTTTA | ACGTTGGATGACTTTACTTTTCCCCAAAC | TTCCCCAAACCTGGTG |
| rs7574865 | ACGTTGGATGAAAAATCCCCTGAAATTCC | ACGTTGGATGGCAGTAAAAGTATGAAAAG | GGTGACCAAAATGT |
| rs11685878 | ACGTTGGATGGCAGGATTTTCTCAGTGTAA | ACGTTGGATGCCCTCACAATCTTATCCTCC | CAAAAGATGGGTTGTTTTC |
| rs1008562 | ACGTTGGATGAGCCTTATAGCTACTAAGCC | ACGTTGGATGGAGACTTTGGAATGGGATAAG | AGGCCTGGAATGAATAT |
| rs3138060 | ACGTTGGATGCTTCACCTGCTAACTCCATG | ACGTTGGATGTCATTTCTGTGGGAGCTGAG | CCTCTCTTGTGACCA |
| rs3136685 | ACGTTGGATGTCCTCTTCACCTGCTAACTC | ACGTTGGATGTGTGGGAGCTGAGGATTTCT | TCCTCTCTTGTGACCA |
| rs17708087 | ACGTTGGATGCGTGCTCCCACTTGCTAGA | ACGTTGGATGCCTGAACCCACTTTCTAAACTCA | GTTAAGCAACATTCCAG |
Basic Information and Predicted Functions of Candidate SNPs
| SNP | Gene | Chromosome | Position | Alleles | HaploReg Annotations |
|---|---|---|---|---|---|
| rs1400656 | 2 | 191,070,307 | A>G | Enhancer histone mark, motifs changed | |
| rs7574865 | 2 | 191,099,907 | G>T | Enhancer histone mark, motifs changed, eQTL hits | |
| rs11685878 | 2 | 191,144,729 | C>T | Enhancer histone mark, motifs changed, eQTL hits | |
| rs1008562 | 2 | 218,162,249 | G>C | motifs changed, eQTL hits | |
| rs3138060 | 2 | 218,166,777 | G>C | Promoter and enhancer histone marks, motifs changed, eQTL hits | |
| rs3136685 | 17 | 40,563,547 | C>T | Promoter and enhancer histone marks, motifs changed, eQTL hits | |
| rs17708087 | 17 | 40,514,261 | A>G | Enhancer histone mark, motifs changed, eQTL hits |
Abbreviations: SNP, single nucleotide polymorphism; eQTL, expression quantitative trait locus.
Allele Frequency Distributions Among Lung Cancer Cases and Healthy Controls
| SNP | Gene | MAF-Case | MAF-Control | HWE | OR (95% CI) | |
|---|---|---|---|---|---|---|
| rs1400656 | 0.12 | 0.16 | 0.99 | 0.694(0.510–0.945) | 0.020* | |
| rs7574865 | 0.21 | 0.27 | 0.50 | 0.735(0.574–0.941) | 0.014* | |
| rs11685878 | 0.45 | 0.49 | 0.99 | 0.857(0.694–1.057) | 0.148 | |
| rs1008562 | 0.44 | 0.33 | 0.47 | 1.655(1.332–2.057) | <0.001* | |
| rs3138060 | 0.18 | 0.17 | 0.71 | 1.030(0.782–1.356) | 0.833 | |
| rs3136685 | 0.37 | 0.31 | 0.10 | 1.309(1.048–1.634) | 0.018* | |
| rs17708087 | 0.40 | 0.36 | 0.16 | 1.186(0.955–1.472) | 0.123 |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: SNP, single nucleotide polymorphism; MAF, minor allele frequency; HWE, Hardy–Weinberg equilibrium.
Genotype Frequency Distributions Among Lung Cancer Cases and Healthy Controls
| SNP | Genotype | Control (%) | Case (%) | OR (95% CI) | |
|---|---|---|---|---|---|
| rs1400656 | A/A | 248 (70.9%) | 275 (78.6%) | 1.00 | 0.048* |
| G/A | 93 (26.6%) | 69 (19.7%) | 0.66 (0.46–0.94) | ||
| G/G | 9 (2.6%) | 6 (1.7%) | 0.59 (0.20–1.68) | ||
| rs7574865 | G/G | 186 (53.1%) | 219 (62.6%) | 1.00 | 0.042* |
| G/T | 142 (40.6%) | 115 (32.9%) | 0.70 (0.51–0.96) | ||
| T/T | 22 (6.3%) | 16 (4.6%) | 0.59 (0.30–1.16) | ||
| rs11685878 | C/C | 91 (26%) | 98 (28%) | 1.00 | 0.170 |
| C/T | 175 (50%) | 188 (53.7%) | 1.02 (0.72–1.46) | ||
| T/T | 84 (24%) | 64 (18.3%) | 0.71 (0.46–1.10) | ||
| rs1008562 | G/G | 162 (46.3%) | 103 (29.4%) | 1.00 | <0.0001* |
| C/G | 148 (42.3%) | 183 (52.3%) | 1.92 (1.38–2.67) | ||
| C/C | 40 (11.4%) | 64 (18.3%) | 2.50 (1.57–3.98) | ||
| rs3138060 | G/G | 237 (67.7%) | 235 (67.1%) | 1.00 | 0.970 |
| C/G | 104 (29.7%) | 105 (30%) | 1.03 (0.74–1.42) | ||
| C/C | 9 (2.6%) | 10 (2.9%) | 1.09 (0.44–2.74) | ||
| rs3136685 | C/C | 161 (46%) | 142 (40.6%) | 1.00 | 0.020* |
| C/T | 163 (46.6%) | 159 (45.4%) | 1.11 (0.81–1.52) | ||
| T/T | 26 (7.4%) | 49 (14%) | 2.09 (1.23–3.54) | ||
| rs17708087 | A/A | 151 (43.1%) | 125 (35.7%) | 1.00 | 0.100 |
| A/G | 148 (42.3%) | 172 (49.1%) | 1.42 (1.03–1.97) | ||
| G/G | 51 (14.6%) | 53 (15.1%) | 1.26 (0.80–1.99) |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: OR, odds ratio; CI, confidence interval.
Association Between Candidate SNPs and Risk of Lung Cancer in Three Genetic Models
| SNP | Model | Genotype | Control | Case | OR (95% CI) | |
|---|---|---|---|---|---|---|
| rs1400656 | Dominant | A/A | 248 (70.9%) | 275 (78.6%) | 1 | 0.014* |
| G/A-G/G | 102 (29.1%) | 75 (21.4%) | 0.65 (0.46–0.92) | |||
| Recessive | A/A-G/A | 341 (97.4%) | 344 (98.3%) | 1 | 0.410 | |
| G/G | 9 (2.6%) | 6 (1.7%) | 0.65 (0.23–1.85) | |||
| Log-additive | — | — | — | 0.69 (0.50–0.93) | 0.016* | |
| rs7574865 | Dominant | G/G | 186 (53.1%) | 219 (62.6%) | 1 | 0.013* |
| G/T-T/T | 164 (46.9%) | 131 (37.4%) | 0.68 (0.51–0.92) | |||
| Recessive | G/G-G/T | 328 (93.7%) | 334 (95.4%) | 1 | 0.250 | |
| T/T | 22 (6.3%) | 16 (4.6%) | 0.68 (0.35–1.32) | |||
| Log-additive | — | — | — | 0.73 (0.57–0.94) | 0.013* | |
| rs11685878 | Dominant | C/C | 91 (26%) | 98 (28%) | 1 | 0.630 |
| C/T-T/T | 259 (74%) | 252 (72%) | 0.92 (0.66–1.29) | |||
| Recessive | C/C-C/T | 266 (76%) | 286 (81.7%) | 1 | 0.059 | |
| T/T | 84 (24%) | 64 (18.3%) | 0.70 (0.49–1.01) | |||
| Log-additive | — | — | — | 0.86 (0.69–1.06) | 0.160 | |
| rs1008562 | Dominant | G/G | 162 (46.3%) | 103 (29.4%) | 1 | <0.0001* |
| C/G-C/C | 188 (53.7%) | 247 (70.6%) | 2.05 (1.50–2.79) | |||
| Recessive | G/G-C/G | 310 (88.6%) | 286 (81.7%) | 1 | 0.011* | |
| C/C | 40 (11.4%) | 64 (18.3%) | 1.73 (1.13–2.66) | |||
| Log-additive | — | — | — | 1.66 (1.33–2.07) | <0.0001* | |
| rs3138060 | Dominant | G/G | 237 (67.7%) | 235 (67.1%) | 1 | 0.840 |
| C/G-C/C | 113 (32.3%) | 115 (32.9%) | 1.03 (0.75–1.42) | |||
| Recessive | G/G-C/G | 341 (97.4%) | 340 (97.1%) | 1 | 0.860 | |
| C/C | 9 (2.6%) | 10 (2.9%) | 1.08 (0.43–2.71) | |||
| Log-additive | — | — | — | 1.03 (0.78–1.37) | 0.820 | |
| rs3136685 | Dominant | C/C | 161 (46%) | 142 (40.6%) | 1 | 0.150 |
| C/T-T/T | 189 (54%) | 208 (59.4%) | 1.25 (0.92–1.68) | |||
| Recessive | C/C-C/T | 324 (92.6%) | 301 (86%) | 1 | 0.007* | |
| T/T | 26 (7.4%) | 49 (14%) | 1.98 (1.20–3.27) | |||
| Log-additive | — | — | — | 1.31 (1.04–1.65) | 0.019* | |
| rs17708087 | Dominant | A/A | 151 (43.1%) | 125 (35.7%) | 1 | 0.038* |
| A/G-G/G | 199 (56.9%) | 225 (64.3%) | 1.38 (1.02–1.87) | |||
| Recessive | A/A-A/G | 299 (85.4%) | 297 (84.9%) | 1 | 0.820 | |
| G/G | 51 (14.6%) | 53 (15.1%) | 1.05 (0.69–1.60) | |||
| Log-additive | — | — | — | 1.19 (0.96–1.47) | 0.120 |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: OR, odds ratio; CI, confidence interval.
Association of Candidate SNPs with the Risk of Lung Cancer in Smokers and Nonsmokers
| SNP | Model | Smokers | Nonsmokers | ||
|---|---|---|---|---|---|
| OR (95% CI) | OR (95% CI) | ||||
| rs1400656 | Dominant | 0.57 (0.36–0.91) | 0.019* | 0.75 (0.45–1.26) | 0.280 |
| Recessive | 0.41 (0.08–2.14) | 0.270 | 1.04 (0.25–4.24) | 0.960 | |
| Log-additive | 0.59 (0.38–0.91) | 0.015* | 0.81 (0.52–1.26) | 0.350 | |
| rs7574865 | Dominant | 0.75 (0.49–1.14) | 0.180 | 0.64 (0.41–0.99) | 0.046* |
| Recessive | 0.86 (0.37–2.01) | 0.720 | 0.49 (0.16–1.49) | 0.200 | |
| Log-additive | 0.81 (0.58–1.14) | 0.230 | 0.66 (0.45–0.97) | 0.031* | |
| rs11685878 | Dominant | 0.96 (0.60–1.53) | 0.870 | 0.89 (0.55–1.44) | 0.630 |
| Recessive | 0.77 (0.46–1.31) | 0.340 | 0.63 (0.38–1.06) | 0.081 | |
| Log-additive | 0.90 (0.66–1.22) | 0.500 | 0.81 (0.60–1.10) | 0.180 | |
| rs1008562 | Dominant | 2.06 (1.33–3.19) | 0.001* | 1.97 (1.25–3.08) | 0.003* |
| Recessive | 1.50 (0.83–2.71) | 0.180 | 1.98 (1.06–3.71) | 0.029* | |
| Log-additive | 1.60 (1.17–2.19) | 0.003* | 1.68 (1.22–2.32) | 0.001* | |
| rs3138060 | Dominant | 0.66 (0.42–1.02) | 0.058 | 1.77 (0.91–2.85) | 0.056 |
| Recessive | 0.57 (0.18–1.79) | 0.330 | 5.34 (0.62–46.24) | 0.077 | |
| Log-additive | 0.69 (0.47–1.00) | 0.051 | 1.79 (0.955–2.77) | 0.058 | |
| rs3136685 | Dominant | 1.00 (0.66–1.51) | 0.990 | 1.61 (1.04–2.50) | 0.033* |
| Recessive | 1.78 (0.93–3.44) | 0.079 | 2.38 (1.08–5.23) | 0.027* | |
| Log-additive | 1.14 (0.84–1.54) | 0.410 | 1.59 (1.13–2.25) | 0.008* | |
| rs17708087 | Dominant | 1.39 (0.91–2.12) | 0.120 | 1.35 (0.86–2.10) | 0.190 |
| Recessive | 1.05 (0.62–1.80) | 0.850 | 1.05 (0.53–2.06) | 0.890 | |
| Log-additive | 1.18 (0.89–1.56) | 0.250 | 1.19 (0.85–1.67) | 0.300 | |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: OR, odds ratio; CI, confidence interval.