| Literature DB >> 29691986 |
Li-Ling Yue1, Fu-Chao Wang2, Ming-Long Zhang1, Dan Liu1, Ping Chen1, Qing-Bu Mei1, Peng-Hui Li1, Hong-Ming Pan3, Li-Hong Zheng1.
Abstract
We tested the hypothesis that genetic variation in ATM and BMI-1 genes can alter the risk of breast cancer through genotyping 6 variants among 524 breast cancer cases and 518 cancer-free controls of Han nationality. This was an observational, hospital-based, case-control association study. Analyses of single variant, linkage, haplotype, interaction and nomogram were performed. Risk was expressed as odds ratio (OR) and 95% confidence interval (CI). All studied variants were in the Hardy-Weinberg equilibrium and were not linked. The mutant allele frequencies of rs1890637, rs3092856 and rs1801516 in ATM gene were significantly higher in cases than in controls (P = .005, <.001 and .001, respectively). Two variants, rs1042059 and rs201024480, in BMI-1 gene were low penetrant, with no detectable significance. After adjustment, rs189037 and rs1801516 were significantly associated with breast cancer under the additive model (OR: 1.37 and 1.52, 95% CI: 1.10-1.71 and 1.14-2.04, P: .005 and .005, respectively). In haplotype analysis, haplotypes A-C-G-G (in order of rs189037, rs3092856, rs1801516 and rs373759) and A-C-A-A in ATM gene were significantly associated with 1.98-fold and 6.04-fold increased risk of breast cancer (95% CI: 1.36-2.90 and 1.65-22.08, respectively). Nomogram analysis estimated that the cumulative proportion of 3 significant variants in ATM gene was about 12.5%. Our findings collectively indicated that ATM gene was a candidate gene in susceptibility to breast cancer in Han Chinese.Entities:
Keywords: ATM gene; BMI-1 gene; association; breast cancer; case-control; risk
Mesh:
Substances:
Year: 2018 PMID: 29691986 PMCID: PMC6010860 DOI: 10.1111/jcmm.13650
Source DB: PubMed Journal: J Cell Mol Med ISSN: 1582-1838 Impact factor: 5.310
The baseline characteristics of study participants
| Characteristics | Cases | Controls |
|
|---|---|---|---|
| Sample size | 524 | 518 | |
| Age (y) | 53.76 (12.62) | 56.49 (10.04) | <.001 |
| Age of menarche (y) | 14.61 (1.65) | 13.04 (1.12) | <.001 |
| Menopausal age (y) | 50.19 (3.98) | n.a. | |
| Family history of cancer | 5.95% | 0.00% | <.001 |
| Invasion depth (n = 477) | n.a. | ||
| T1 | 49.69% (n = 237) | ||
| T2 | 42.77% (n = 204) | ||
| T3 | 3.77% (n = 18) | ||
| T4 | 3.77% (n = 18) | ||
| Tumour stage (n = 410) | n.a. | ||
| I | 4.63% (n = 19) | ||
| II | 49.27% (n = 202) | ||
| III | 46.10% (n = 189) | ||
| Positive lymph node (n = 511) | 42.47% (n = 217) | n.a. |
n.a.: not available. Data are expressed as mean (standard deviation) or percentage.
Genotype and allele distributions of 6 studied variants between cases and controls, and genotype‐based risk prediction for breast cancer
| Gene: Variant | Cases (n = 524) | Controls (n = 518) |
| OR, 95% CI, |
|---|---|---|---|---|
| ATM: rs189037 | ||||
| GG | 166 (31.68%) | 196 (37.84%) | .012 | Reference group |
| GA | 262 (50.00%) | 258 (49.81%) | 1.18, 0.84‐1.64, .341 | |
| AA | 96 (18.32%) | 64 (12.36%) | 2.02, 1.28‐3.18, .002 | |
| A | 43.32% | 37.26% | .005 | |
| ATM: rs3092856 | ||||
| CC | 445 (84.92%) | 474 (91.51%) | <.001 | Reference group |
| CT | 67 (12.79%) | 42 (8.11%) | 1.36, 0.82‐2.24, .232 | |
| TT | 12 (2.29%) | 2 (0.39%) | 4.95, 0.96‐25.52, .056 | |
| T | 8.68% | 4.44% | <.001 | |
| ATM: rs1801516 | ||||
| GG | 351 (66.98%) | 380 (73.36%) | <.001 | Reference group |
| GA | 146 (27.86%) | 133 (25.68%) | 1.22, 0.86‐1.72, .262 | |
| AA | 27 (5.15%) | 5 (0.97%) | 8.06, 2.41‐26.92, .001 | |
| A | 19.08% | 14.15% | .001 | |
| ATM: rs373759 | ||||
| GG | 161 (30.37%) | 162 (31.27%) | .080 | Reference group |
| GA | 247 (47.14%) | 269 (51.93%) | 0.89, 0.63‐1.26, .520 | |
| AA | 116 (22.14%) | 87 (16.80%) | 1.10, 0.72‐1.70, .653 | |
| A | 45.71% | 42.76% | .176 | |
| BMI‐1: rs1042059 | ||||
| GG | 511 (97.52%) | 506 (97.68%) | .862 | Reference group |
| GA | 13 (2.48%) | 12 (2.32%) | 0.94, 0.36‐2.42, .892 | |
| AA | 0 (0.0%) | 0 (0.0%) | Unavailable | |
| A | 1.24% | 1.16% | .863 | |
| BMI‐1: rs201024480 | ||||
| AA | 515 (98.28%) | 511 (98.65%) | 1.000 | Reference group |
| AG | 8 (1.53%) | 7 (1.35%) | 1.03, 0.27‐3.97, .965 | |
| GG | 1 (0.19%) | 0 (0.0%) | Unavailable | |
| G | 0.95% | 0.68% | .480 | |
OR, odds ratio; 95% CI, 95% confidence interval. *The P values were calculated after adjusting for age and age of menarche in a logistic regression analysis.
The unadjusted and adjusted risk prediction of 6 studied variants for breast cancer under additive and dominant models, respectively
| Gene: Variant | Model | Additive model | Dominant model |
|---|---|---|---|
| ATM: rs189037 | Unadjusted | 1.30, 1.09‐1.56, .004 | 1.32, 1.02‐1.70, .037 |
| Adjusted | 1.37, 1.10‐1.71, .005 | 1.34, 0.98‐1.85, .067 | |
| ATM: rs3092856 | Unadjusted | 1.88, 1.33‐2.67, <.001 | 1.91, 1.29‐2.83, .001 |
| Adjusted | 1.58, 1.04‐2.39, .031 | 1.55, 0.96‐2.49, .071 | |
| ATM: rs1801516 | Unadjusted | 1.46, 1.16‐1.84, .001 | 1.36, 1.04‐1.77, .026 |
| Adjusted | 1.52, 1.14‐2.04, .005 | 1.39, 1.00‐1.93, .048 | |
| ATM: rs373759 | Unadjusted | 1.13, 0.95‐1.34, .175 | 1.03, 0.79‐1.33, .848 |
| Adjusted | 1.03, 0.84‐1.28, .756 | 0.95, 0.69‐1.32, .758 | |
| BMI‐1: rs1042059 | Unadjusted | 1.07, 0.48‐2.37, .862 | 1.07, 0.48‐2.37, .862 |
| Adjusted | 0.94, 0.36‐2.42, .892 | 0.94, 0.36‐2.42, .892 | |
| BMI‐1: rs201024480 | Unadjusted | 1.37, 0.54‐3.45, .505 | 1.28, 0.47‐3.45, .632 |
| Adjusted | 1.03, 0.27‐3.97, .965 | 1.03, 0.27‐3.97, .965 |
Data are expressed as odds ratio, 95% confidence interval, P value. *The P values were calculated after adjusting for age and age of menarche in a logistic regression analysis.
Haplotype frequencies of variants in ATM and BMI1 genes between cases and controls, and haplotype‐based risk prediction for breast cancer
| Haplotype | Hap‐Score | All, % | Cases (n = 524), % | Controls (n = 518), % | Sim | OR | 95% lower limit | 95% upper limit |
|---|---|---|---|---|---|---|---|---|
| ATM gene | ||||||||
| G‐C‐G‐G | −4.77 | 25.78 | 20.74 | 30.82 | <.001 | 1.00 | Reference group | |
| G‐C‐G‐A | −1.06 | 20.69 | 20.88 | 19.99 | .287 | 1.55 | 0.98 | 2.12 |
| A‐C‐G‐G | 1.32 | 17.96 | 20.25 | 14.90 | .019 | 1.98 | 1.36 | 2.90 |
| A‐C‐G‐A | −0.21 | 13.83 | 12.55 | 16.29 | .838 | 1.22 | 0.87 | 1.70 |
| G‐C‐A‐G | −0.34 | 5.23 | 5.13 | 5.69 | .736 | 1.45 | 0.80 | 2.65 |
| G‐C‐A‐A | 1.56 | 3.65 | 3.99 | 3.26 | .116 | 1.76 | 0.92 | 3.40 |
| A‐C‐A‐G | 1.64 | 3.60 | 3.79 | 3.67 | .102 | 1.54 | 0.81 | 2.93 |
| A‐C‐A‐A | 3.41 | 2.69 | 3.98 | 0.95 | .001 | 6.04 | 1.65 | 22.08 |
| G‐T‐G‐A | 2.03 | 2.01 | 2.52 | 1.79 | .043 | 2.39 | 0.88 | 6.45 |
| G‐T‐G‐G | 1.85 | 1.42 | 1.90 | 0.95 | .065 | 1.79 | 0.45 | 7.15 |
| A‐T‐G‐A | 1.67 | 1.00 | 1.20 | 0.30 | .093 | 2.19 | 0.50 | 9.58 |
| BMI‐1 gene | ||||||||
| G‐A | −0.58 | 97.98 | 97.81 | 98.17 | 0.559 | 1.00 | Reference group | |
| A‐A | 0.17 | 1.20 | 1.24 | 1.16 | 0.842 | 1.08 | 0.49 | 2.39 |
Hap‐Score, haplotype score, Sim P value, simulated P value; OR, odds ratio.
In ATM gene, alleles are arranged according to the order of rs189037, rs3092856, rs1801516 and rs373759, and in BMI‐1 gene, alleles are arranged according to the order of rs1042059 and rs201024480.
Figure 1Nomogram calculator in prediction for the risk of breast cancer. The magnitude of each factor in prediction for the risk of breast cancer can be estimated through drawing a vertical line from the measured value of each factor to the horizontal “Points” line, and each point is recorded. The total point is calculated by summing up all individual points and is marked on the horizontal “Total Points” line. Then, a vertical line starting from this total point is projected on the horizontal “Risk” line, and the value denotes the risk of having breast cancer