A Bayesian Hierarchical Model for Relating Multiple SNPs within Multiple Genes to Disease Risk
Table 2
Association between selected variants in DNA-damage response genes and CBC risk in the WECARE study.
Gene
rs number
Homozygous; reference allele
Heterozygous
Homozygous; risk allele
Bayes factors
Case (CBC)
Control (UBC)
Case (CBC)
Control (UBC)
Case (CBC)
Control (UBC)
(95% CI)
valued
BF SNP
BF gene
ATM
rs1800057a
680
1322
28
76
0
1
−0.47 (−0.95, −0.01)
0.046
4.58
1.41
rs4987951a
674
1278
34
121
0
0
−0.66 (−1.32, −0.25)
0.002
9.04
CHEK2
rs6005861a,b
680
1311
27
86
1
2
−0.40 (−0.85, 0.06)
0.086
7
0.36
MDC1
rs4713354a,b
535
1116
157
267
16
16
0.47 (0.26, 0.68)
<0.001
9.72
20.71
rs2269705a
589
1220
113
175
6
4
0.50 (0.25, 0.76)
<0.001
15.91
MRE11A
rs13447682a,b
690
1343
18
54
0
2
−0.56 (−1.12, −0.01)
0.046
5.7
0.52
NBN
rs14448b
640
1215
60
171
8
13
−0.11 (−0.40, 0.18)
0.447
0.2
2.62
rs9297757a,b
651
1233
148
52
5
18
−0.26 (−0.58, 0.05)
0.097
27.33
rs3736640a,b
676
1288
32
107
0
4
−0.64 (−1.27, −0.21)
0.003
4.14
RAD51
rs1801320a
646
1209
58
186
4
4
−0.31 (−0.62, 0.00)
0.048
21.38
3.51
SNPs identified by Model I based on Bayes factors. Only those SNPs with BF exceeding 3 are listed. SNPs identified by Brooks et al. 2012 [25] based on per-allele RR. Only those SNPs with value for trend <0.05 are listed. : regression coefficients of each SNP from simple logistic regression, adjusted for age, menarche, menopause, family history, pregnancy, histology, treatment, the FGFR2 GWAS-identified SNP, and deleterious variants in ATM, BRCA1, BRCA2, CHECK2, and offset term. values associated with Wald- test for estimates from simple logistic regression adjusted for fixed covariants listed in d.