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Table 3 Single-nucleotide polymorphisms (SNPs) in the ovarian cancer study set. Allele frequencies, genotype frequencies and genotype-specific risks in 864 women with ovarian cancer and 864 controls. OR, odds ratio; CI, confidence intervals; RAF, rare allele frequency; M/M, common homozygotes; M/m, heterozygotes; m/m, rare homozygotes; df, degrees of freedom.

From: Common variation in EMSYand risk of breast and ovarian cancer: a case-control study using HapMap tagging SNPs

SNP

Series

RAF

M/M n (%)

M/m n (%)

m/m n (%)

Number genotyped

P 2 df

5'up t>g

Cases

0.31

346 (47)

315 (43)

69 (9)

730

 
 

Controls

0.32

392 (46)

369 (43)

92 (11)

853

0.65

 

OR

(95% CI)

 

1

(ref)

0.97

(0.79–1.19)

0.85

(0.60–1.20)

  

IVS7 g>a

Cases

0.40

222 (37)

289 (48)

95 (16)

606

 
 

Controls

0.40

304 (36)

405 (48)

140 (16)

849

0.90

 

OR

(95% CI)

 

1

(ref)

0.98

(0.78–1.23)

0.93

(0.68–1.27)

  

IVS16 a>g

Cases

0.14

479 (74)

164 (25)

6 (1)

649

 
 

Controls

0.13

652 (76)

188 (22)

13 (2)

853

0.22

 

OR

(95% CI)

 

1

(ref)

1.19

(0.93–1.51)

0.63

(0.24–1.66)

  

3'down c>t

Cases

0.44

219 (30)

370 (51)

141 (19)

730

 
 

Controls

0.43

283 (33)

412 (48)

159 (19)

854

0.41

 

OR

(95% CI)

 

1

(ref)

1.16

(0.93–1.45)

1.15

(0.86–1.53)

  

IVS9 a>g

Cases

0.39

319 (37)

398 (47)

134 (16)

851

 
 

Controls

0.39

327 (38)

402 (47)

133 (15)

862

0.97

 

OR

(95% CI)

 

1

(ref)

1.01

(0.82–1.25)

1.03

(0.78–1.37)

  

IVS10 c>t

Cases

0.04

778 (92)

68 (8)

0 (0)

846

 
 

Controls

0.05

776 (91)

77 (9)

2 (0)

855

0.29

 

OR

(95% CI)

 

1

(ref)

0.88

(0.63–1.24)

-

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