Table 1.

New associations with a second cancer at known single-cancer risk loci^a

Region, positionb	Index SNP, nearest gene	Alleles (E/R), EAF	Cancer Type	OR (95% CI)	P	Imputation r2c
New associations with breast cancer at known index SNPs for ovarian or prostate cancer (same direction)
9q34	rs635634	T/C	Breast cancer	1.06 (1.03–1.08)	8.1×10−7	0.88
136155000	ABO	0.20	Ovarian cancer	1.12 (1.07–1.16)	8.6×10−9	0.88
3q23	rs6763931d	A/G	Breast cancer	1.04 (1.02–1.06)	1.2×10−6	1f
141102833	ZBTB38	0.45	Prostate cancer	1.06 (1.03–1.08)	1.0×10−6	1f
11q23	rs11214775	A/G	Breast cancer	0.96 (0.94–0.98)	5.2×10−5	0.82
113807181	HTR3B	0.29	Prostate cancer	0.93 (0.90–0.95)	3.0×10−8	0.82
New association with ovarian cancer at a known index SNP for breast cancer (same direction)
13q13	rs11571833d	T/A	Ovarian cancere	1.57 (1.33–1.85)	6.4×10−8	1f
32972626	BRCA2	0.008	Breast cancere	1.46 (1.23–1.73)	6.9×10−6	1f
New association with prostate cancer at a known index SNP for breast cancer (opposite direction)
2q33	rs1830298	T/C	Prostate cancer	1.06 (1.04–1.09)	1.3×10−6	0.99
202181247	ALS2CR12	0.71	Breast cancer	0.94 (0.93–0.96)	2.6×10−10	0.99

Abbreviations: (E/R), (effect/reference) alleles; EAF: effect allele frequency.

^aThe new associations are in bold text and listed first.

^bBuild 37 coordinates.

^cImputation accuracy, r², in iCOGS European samples.

^dPreviously published genome-wide significant associations for rs6763931 (prostate cancer) and rs11571833 (breast cancer) did not reach P < 5 × 10⁻⁸ in the data sets used for the current study.

^eResults reported here are for ER-negative breast cancer and serous invasive ovarian cancer as the effect size estimates (odds ratios) were larger for the subtype-specific associations when compared to overall breast cancer and all invasive ovarian cancer.

^fGenotyped SNP.