Table 1.

Loci showing a significant association with ductal carcinoma in situ (DCIS) at P <0.00066

Chromosome	SNP	Locus	RAF	DCIS vs controls (meta-analysis)			IDC vs controls			Case-only DCIS vs IDC
			Controls	OR	(95 % CI)	P	OR	(95 % CI)	P	P-Het
10	rs2981579	FGFR2	0.40	1.29	(1.24, 1.35)	9.0 × 10-30	1.24	(1.21, 1.28)	6.1 × 10-66	0.14
10	rs2981582	FGFR2	0.38	1.28	(1.23, 1.34)	1.8 × 10-27	1.23	(1.20, 1.26)	2.1 × 10-59	0.21
16	rs3803662	TOX3	0.26	1.15	(1.10, 1.21)	1.7 × 10-8	1.23	(1.20, 1.27)	1.5 × 10-50	0.69
5	rs889312	MAP3K1	0.28	1.14	(1.09, 1.20)	6.9 × 10-8	1.11	(1.08, 1.14)	2.2 × 10-14	0.13
3	rs4973768	SLC4A7	0.47	1.13	(1.08, 1.18)	9.1 × 10-8	1.09	(1.07, 1.12)	8.2 × 10-13	0.58
5	rs10941679	5p12	0.25	1.14	(1.09, 1.20)	1.3 × 10-7	1.14	(1.11, 1.18)	1.2 × 10-20	0.90
3	rs3821902	ATXN7	0.13	1.16	(1.09, 1.23)	3.0 × 10-6	1.06	(1.02, 1.09)	0.0030	0.33
19	rs4808801	SSBP4	0.65	1.12	(1.06, 1.18)	3.1 × 10-6	1.09	(1.05, 1.11)	3.5 × 10-9	0.16
10	rs10995190	ZNF365	0.85	1.16	(1.09, 1.23)	4.1 × 10-6	1.15	(1.11, 1.19)	7.5 × 10-16	0.61
2	rs13387042	2q35	0.51	1.10	(1.05, 1.15)	1.1 × 10-5	1.14	(1.11, 1.16)	8.3 × 10-25	0.34
6	rs3757318	ESR1	0.07	1.20	(1.10, 1.30)	1.4 × 10-5	1.16	(1.10, 1.21)	1.2 × 10-9	0.85
11	rs554219	CCND1	0.12	1.15	(1.08, 1.22)	2.8 × 10-5	1.27	(1.22, 1.32)	6.4 × 10-38	0.88
6	rs2046210	ESR1	0.34	1.10	(1.05, 1.15)	8.6 × 10-5	1.09	(1.06, 1.12)	4.0 × 10-10	0.32
12	rs10771399	PTHLH	0.88	1.15	(1.06, 1.23)	0.00021	1.18	(1.12, 1.22)	1.2 × 10-14	0.53
8	rs11780156	8q24.21	0.16	1.11	(1.05, 1.18)	0.00027	1.10	(1.06, 1.14)	2.3 × 10-8	0.88
16	rs17817449	FTO	0.60	1.09	(1.03, 1.14)	0.00052	1.06	(1.04, 1.10)	5.9 × 10-7	0.32

SNP single nucleotide polymorphism, IDC invasive ductal carcinoma, OR odds ratio; P-Het P value for heterogeneity; RAF risk allele frequency