| Literature DB >> 35241926 |
Abstract
PURPOSE: This study aimed to evaluate the association between polymorphisms in the ferroptosis-related genes apolipoprotein E (APOE), BCL3 transcription coactivator (BCL3) and arachidonate 5-lipoxygenase activating protein (ALOX5AP) and the risk of thyroid cancer.Entities:
Keywords: ALOX5AP; APOE; BCL3; SNPs; single nucleotide polymorphisms; thyroid cancer
Year: 2022 PMID: 35241926 PMCID: PMC8887669 DOI: 10.2147/PGPM.S352225
Source DB: PubMed Journal: Pharmgenomics Pers Med ISSN: 1178-7066
The Basic Information of the Participants
| Characteristics | Case (n=520) | Control (n=520) | ||
|---|---|---|---|---|
| Sex (%) | ||||
| Male | 166 (31.9) | 174 (33.5) | 0.280 | 0.597 |
| Female | 354 (68.1) | 346 (66.5) | ||
| Age | ||||
| Mean±SD | 49.99±12.54 | 49.22±12.12 | 0.382 | 0.313 |
Basic Information and Predicted Functions of Candidate SNPs
| SNP | Gene | Position | Allele | Role | Predicted Functions |
|---|---|---|---|---|---|
| rs429358 | chr19:44908684 | T>C | Missense Variant | Cys130Arg | |
| rs7412 | chr19:44908822 | C>T | Missense Variant | Arg176Cys | |
| rs34698726 | chr19:44740744 | A>T | Upstream Variant | Enhancer histone mark, motifs changed, eQTL hits | |
| rs8100239 | chr19:44749847 | T>A | Intron Variant | DNAse, motifs changed | |
| rs4076128 | chr13:30731006 | A>G | Intron Variant | Promoter/Enhancer histone marks, DNAse, motifs changed, eQTL hits | |
| rs4073259 | chr13:30732134 | A>G | Intron Variant | Promoter/Enhancer histone marks, DNAse, motifs changed, eQTL hits |
Abbreviations: SNP, single nucleotide polymorphism; eQTL, expression quantitative trait locus.
The MAF and HWE of Candidate SNPs in Thyroid Cancer Cases and Healthy Controls
| SNP | Gene | MAF-Cases | MAF-Controls | HWE | OR (95% CI) | |
|---|---|---|---|---|---|---|
| rs429358 | 0.21 | 0.15 | 0.99 | 1.465 (1.170–1.833) | 0.001* | |
| rs7412 | 0.09 | 0.15 | 0.73 | 0.585 (0.446–0.767) | <0.001* | |
| rs34698726 | 0.43 | 0.36 | 0.51 | 1.316 (1.103–1.569) | 0.002* | |
| rs8100239 | 0.32 | 0.25 | 0.64 | 1.410 (1.163–1.709) | <0.001* | |
| rs4076128 | 0.33 | 0.41 | 0.21 | 0.698 (0.584–0.835) | <0.001* | |
| rs4073259 | 0.45 | 0.43 | 0.18 | 1.076 (0.906–1.280) | 0.402 |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: SNP, single nucleotide polymorphism; MAF, minor allele frequency; HWE, Hardy–Weinberg equilibrium.
Genotype Frequency Distributions Between Thyroid Cancer Cases and Healthy Controls
| SNP | Gene | Genotype | Control | Case | OR (95% CI) | |
|---|---|---|---|---|---|---|
| rs429358 | TT | 371 (71.3%) | 317 (61%) | 1 | 0.002* | |
| TC | 137 (26.4%) | 186 (35.8%) | 1.59 (1.22–2.08) | |||
| CC | 12 (2.3%) | 17 (3.3%) | 1.68 (0.79–3.57) | |||
| rs7412 | CC | 376 (72.3%) | 427 (82.1%) | 1 | 0.0003* | |
| CT | 134 (25.8%) | 90 (17.3%) | 0.59 (0.43–0.79) | |||
| TT | 10 (1.9%) | 3 (0.6%) | 0.26 (0.07–0.95) | |||
| rs34698726 | AA | 208 (40%) | 166 (31.9%) | 1 | 0.007* | |
| TA | 248 (47.7%) | 264 (50.8%) | 1.33 (1.02–1.74) | |||
| TT | 64 (12.3%) | 90 (17.3%) | 1.79 (1.22–2.62) | |||
| rs8100239 | TT | 297 (57.1%) | 251 (48.3%) | 1 | 0.002* | |
| AT | 189 (36.4%) | 209 (40.2%) | 1.32 (1.02–1.71) | |||
| AA | 34 (6.5%) | 60 (11.5%) | 2.09 (1.33–3.28) | |||
| rs4076128 | AA | 171 (32.9%) | 236 (45.4%) | 1 | 0.0001* | |
| GA | 267 (51.4%) | 224 (43.1%) | 0.61 (0.47–0.79) | |||
| GG | 82 (15.8%) | 60 (11.5%) | 0.53 (0.36–0.78) | |||
| rs4073259 | AA | 175 (33.6%) | 158 (30.4%) | 1 | 0.470 | |
| GA | 240 (46.1%) | 255 (49%) | 1.19 (0.90–1.57) | |||
| GG | 105 (20.2%) | 107 (20.6%) | 1.13 (0.80–1.60) |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: SNP, single nucleotide polymorphism; OR, odds ratio; CI, confidence interval.
Association Between SNPs and Risk of Thyroid Cancer in Genetic Models
| SNP | Gene | Model | Genotype | Control | Case | OR (95% CI) | |
|---|---|---|---|---|---|---|---|
| rs429358 | Dominant | TT | 371 (71.3%) | 317 (61%) | 1 | 0.0004* | |
| TC-CC | 149 (28.6%) | 203 (39%) | 1.60 (1.23–2.07) | ||||
| Recessive | TT-TC | 508 (97.7%) | 503 (96.7%) | 1 | 0.330 | ||
| CC | 12 (2.3%) | 17 (3.3%) | 1.45 (0.68–3.06) | ||||
| Log-additive | - | - | - | 1.49 (1.18–1.88) | 0.0006* | ||
| rs7412 | Dominant | CC | 376 (72.3%) | 427 (82.1%) | 1 | 0.0001* | |
| CT-TT | 144 (27.7%) | 93 (17.9%) | 0.56 (0.42–0.76) | ||||
| Recessive | CC-CT | 510 (98.1%) | 517 (99.4%) | 1 | 0.051 | ||
| TT | 10 (1.9%) | 3 (0.6%) | 0.29 (0.08–1.06) | ||||
| Log-additive | - | - | - | 0.57 (0.43–0.75) | 0.0001* | ||
| rs34698726 | Dominant | AA | 208 (40%) | 166 (31.9%) | 1 | 0.0066* | |
| TA-TT | 312 (60%) | 354 (68.1%) | 1.42 (1.10–1.84) | ||||
| Recessive | AA-TA | 456 (87.7%) | 430 (82.7%) | 1 | 0.018* | ||
| TT | 64 (12.3%) | 90 (17.3%) | 1.52 (1.07–2.15) | ||||
| Log-additive | - | - | - | 1.34 (1.11–1.60) | 0.0016* | ||
| rs8100239 | Dominant | TT | 297 (57.1%) | 251 (48.3%) | 1 | 0.0037* | |
| AT-AA | 223 (42.9%) | 269 (51.7%) | 1.44 (1.12–1.84) | ||||
| Recessive | TT-AT | 486 (93.5%) | 460 (88.5%) | 1 | 0.0049* | ||
| AA | 34 (6.5%) | 60 (11.5%) | 1.86 (1.20–2.89) | ||||
| Log-additive | - | - | - | 1.39 (1.15–1.68) | 0.0006* | ||
| rs4076128 | Dominant | AA | 171 (32.9%) | 236 (45.4%) | 1 | <0.0001* | |
| GA-GG | 349 (67.1%) | 284 (54.6%) | 0.59 (0.46–0.76) | ||||
| Recessive | AA-GA | 438 (84.2%) | 460 (88.5%) | 1 | 0.043* | ||
| GG | 82 (15.8%) | 60 (11.5%) | 0.69 (0.48–0.99) | ||||
| Log-additive | - | - | - | 0.69 (0.58–0.83) | 0.0001* | ||
| rs4073259 | Dominant | AA | 175 (33.6%) | 158 (30.4%) | 1 | 0.23 | |
| GA-GG | 345 (66.3%) | 362 (69.6%) | 1.17 (0.90–1.52) | ||||
| Recessive | AA-GA | 415 (79.8%) | 413 (79.4%) | 1 | 0.89 | ||
| GG | 105 (20.2%) | 107 (20.6%) | 1.02 (0.76–1.38) | ||||
| Log-additive | – | – | – | 1.08 (0.91–1.28) | 0.39 |
Note: *p < 0.05 indicates statistical significance.
Abbreviations: SNP, single nucleotide polymorphism; OR, odds ratio; CI, confidence interval.
Association Between Candidate SNPs and Risk of Thyroid Cancer Stratified by Sex
| SNP | Gene | Model | Genotype | Male | Female | ||
|---|---|---|---|---|---|---|---|
| OR (95% CI) | OR (95% CI) | ||||||
| rs429358 | Dominant | TT | 1.00 | 0.920 | 1.00 | <0.0001* | |
| TC-CC | 0.98 (0.61–1.56) | 2.00 (1.46–2.75) | |||||
| Recessive | TT-TC | 1.00 | 0.950 | 1.00 | 0.240 | ||
| CC | 1.05 (0.26–4.28) | 1.69 (0.69–4.16) | |||||
| Log-additive | - | 0.99 (0.65–1.49) | 0.950 | 1.81 (1.37–2.41) | <0.0001* | ||
| rs7412 | Dominant | CC | 1.00 | 0.010* | 1.00 | 0.004* | |
| CT-TT | 0.49 (0.28–0.85) | 0.60 (0.42–0.85) | |||||
| Recessive | CC-CT | 1.00 | 0.110 | 1.00 | 0.210 | ||
| TT | 0.22 (0.02–1.89) | 0.37 (0.07–1.91) | |||||
| Log-additive | - | 0.50 (0.30–0.83) | 0.006* | 0.61 (0.43–0.85) | 0.003* | ||
| rs34698726 | Dominant | AA | 1.00 | 0.050 | 1.00 | 0.035* | |
| TA-TT | 1.57 (1.00–2.47) | 1.40 (1.02–1.90) | |||||
| Recessive | AA-TA | 1.00 | 0.046* | 1.00 | 0.170 | ||
| TT | 1.84 (1.00–3.38) | 1.34 (0.88–2.06) | |||||
| Log-additive | - | 1.47 (1.07–2.02) | 0.016* | 1.28 (1.03–1.60) | 0.028* | ||
| rs8100239 | Dominant | TT | 1.00 | 0.260 | 1.00 | 0.008* | |
| AT-AA | 1.28 (0.83–1.98) | 1.49 (1.11–2.01) | |||||
| Recessive | TT-AT | 1.00 | 0.360 | 1.00 | 0.004* | ||
| AA | 1.40 (0.68–2.86) | 2.24 (1.27–3.94) | |||||
| Log-additive | - | 1.23 (0.89–1.69) | 0.210 | 1.48 (1.17–1.87) | 0.001* | ||
| rs4076128 | Dominant | AA | 1.00 | 0.034* | 1.00 | 0.0008* | |
| GA-GG | 0.62 (0.40–0.97) | 0.59 (0.43–0.80) | |||||
| Recessive | AA-GA | 1.00 | 0.006* | 1.00 | 0.530 | ||
| GG | 0.38 (0.18–0.78) | 0.87 (0.57–1.33) | |||||
| Log-additive | - | 0.61 (0.44–0.86) | 0.004* | 0.74 (0.60–0.92) | 0.007* | ||
| rs4073259 | Dominant | AA | 1.00 | 0.006 | 1.00 | 0.700 | |
| GA-GG | 1.96 (1.20–3.18) | 0.94 (0.69–1.29) | |||||
| Recessive | AA-GA | 1.00 | 0.800 | 1.00 | 0.980 | ||
| GG | 1.07 (0.64–1.79) | 0.99 (0.68–1.45) | |||||
| Log-additive | – | 1.34 (0.99–1.82) | 0.059 | 0.97 (0.79–1.19) | 0.780 | ||
Note: *p < 0.05 indicates statistical significance.
Abbreviations: SNP, single nucleotide polymorphism; OR, odds ratio; CI, confidence interval.