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Table 5 Associations with ductal and lobular breast cancer a

From: Associations of common breast cancer susceptibility alleles with risk of breast cancer subtypes in BRCA1 and BRCA2 mutation carriers

         

N tumors with morphology (MAF)

 

Other morphology

Tumors with morphology

 

Subtype

Sample

SNP

Locus

Position b

Nearby gene

Ref c

Eff d

Reported e

Present

Other

Unknown

Number unaffected (MAF)

HR (95% CI)

P -value

HR (95% CI)

P -value

P het-value f

Ductal

BRCA1 carriers

rs10069690

5p15.33

1332790

TERT

G

A

Yes

3,155 (0.29)

847 (0.30)

3,783 (0.30)

7,449 (0.26)

1.23 (1.11 to 1.36)

7.3 × 10−5

1.20 (1.14 to 1.26)

2.0 × 10−11

0.67

  

rs11155803

6q25.1

151987362

C6orf97

A

G

Yes

3,159 (0.36)

848 (0.35)

3,786 (0.36)

7,452 (0.32)

1.13 (1.03 to 1.25)

0.01

1.17 (1.11 to 1.23)

4.6 × 10−10

0.58

  

rs10252939

7q36

155587448

 

A

G

No

3,159 (0.28)

849 (0.33)

3,789 (0.29)

7,455 (0.32)

1.08 (0.98 to 1.19)

0.14

0.87 (0.82 to 0.91)

1.0 × 10−7

2.7 × 10−4

  

rs8100241

19p13.11

17253894

ANKLE1

G

A

Yes

3,137 (0.48)

844 (0.49)

3,777 (0.47)

7,420 (0.52)

0.87 (0.79 to 0.95)

2.8 × 10−3

0.84 (0.8 to 0.88)

1.5 × 10−13

0.51

 

BRCA2 carriers

rs2162540

10q26

123342126

FGFR2

A

G

Yes

1,728 (0.45)

458 (0.44)

2,038 (0.44)

3,783 (0.38)

1.24 (1.08 to 1.42)

1.8 × 10−3

1.30 (1.21 to 1.39)

3.1 × 10−14

0.55

  

rs1362548

16q12.1

51121452

TOX3

C

G

Yes

1,770 (0.3)

473 (0.32)

2,087 (0.31)

3,881 (0.26)

1.32 (1.15 to 1.51)

4.8 × 10−5

1.23 (1.15 to 1.32)

7.3 × 10−9

0.36

Lobular

BRCA2 carriers

rs2186703

11q23.3

115265717

RPL15P15

A

C

No

188 (0.07)

2,055 (0.03)

2,087 (0.04)

3,881 (0.03)

1.09 (0.93 to 1.27)

0.29

2.54 (1.78 to 3.62)

2.8 × 10−7

1.5 × 10−5

  

rs55998524

Xp11.23

51082075

NUDT10

C

G

No

188 (0.11)

2,054 (0.05)

2,086 (0.06)

3,880 (0.05)

0.96 (0.83 to 1.1)

0.54

2.42 (1.77 to 3.32)

3.6 × 10−8

7.0 × 10−8

  1. aCI, Confidence interval; HR, Hazard ratio; MAF, Mean allele frequency. Single-nucleotide polymorphisms (SNPs) associated at P <10−6 with ductal carcinomas and, for BRCA2 mutation carriers, lobular carcinomas are shown. The most strongly associated SNP from each locus is reported. bPosition in build 36. cReference allele. dEffect allele. eVariant located in previously reported breast cancer susceptibility locus. fP-value for the difference in SNP association between ductal breast tumors and non-ductal breast tumors and for lobular breast tumors and non-lobular breast tumors.