Table 5.

Haplotypes frequency in case and control groups, and their association with breast cancer.

	ApaI	BsmI	FokI	Cdx2		TaqI	Total	BC group	Control group	OR (95% CI)	P-value
1	A	A	T		G	T	0.1176	0.1037	0.1285	1.00	–
2	A	G	T		A	T	0.0702	0	0.1119	1.37 (0.47–3.99)	0.56
3	A	G	T		G	T	0.0679	0.0546	0.088	2.60 (0.62–10.94)	0.19
4	A	A	C		G	T	0.0588	0.0532	0.0674	0.08 (0.01–1.04)	0.055
5	A	A	T		G	C	0.0547	0	0.0678	1.03 (0.17–6.27)	0.97
6	C	G	T		G	T	0.053	0.0716	0.0252	0.47 (0.13–1.75)	0.26
7	A	G	C		G	C	0.0493	0.0648	0.05	0.02 (0.00–0.53)	0.02
8	C	A	T		G	C	0.0455	0.0334	0.0525	1.40 (0.30–6.53)	0.67
9	A	A	T		A	C	0.0454	0.0735	0.0213	3.31 (0.26–41.96)	0.36
10	A	A	C		A	T	0.0436	0.0404	0.0252	0.31 (0.06–1.53)	0.15
11	A	A	T		A	T	0.0367	0.0406	0.0438	0.95 (0.08–11.51)	0.97
12	C	A	C		G	C	0.0356	0.0325	0.0412	0.08 (0.01–0.66)	0.019
13	A	G	T		G	C	0.035	0.0508	0.0446	1.25 (0.28–5.49)	0.77
14	A	G	C		G	T	0.032	0.0778	0.0055	11.80 (0.49–285.35)	0.13
15	C	A	T		A	T	0.0306	0.0595	0.0222	0.54 (0.11–2.54)	0.44
16	C	A	C		G	T	0.029	0.0289	0.0273	1.20 (0.17–8.68)	0.85
17	C	A	C		A	T	0.0266	0	0.0478	0.02 (0.00–0.78)	0.037
18	A	A	C		G	C	0.0258	0.0201	0.0135	3.62 (0.12–111.21)	0.46
19	C	G	T		A	T	0.0239	0.0205	0.0129	5.64 (3.64–7.43)	<0.0001
20	C	G	C		G	T	0.02	0	0.0252	1.55 (0.20–11.97)	0.67
21	A	G	C		A	C	0.0191	0.0281	0.0107	0.33 (0.01–11.32)	0.54
22	A	G	T		A	C	0.0183	0.017	0.0204	0.76 (0.06–9.46)	0.83
23	C	A	T		A	C	0.0182	0.0216	0.0061	0.22 (0.01–6.39)	0.38
24	C	G	T		G	C	0.0153	0.0291	0.0178	0.09 (0.00–1.92)	0.12
Rare	*	*	*		*	*	0.0281			8.39 (0.29–243.29)	0.22

Rare (*): All haplotypes with estimated frequencies <0.01% in total population.

BC group: breast cancer group, OR: odds ratio, CI: confidence interval.