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Table 3 Average methylation frequency for the 196 subtype-associated CpGs

From: Molecular subtypes of breast cancer are associated with characteristic DNA methylation patterns

 

Methylation frequency (%)

Number of patients

P-value1

 

Average

SD

  

Molecular subtype2

   

2 × 10 -7

   Basal-like

27.6

4.1

43

 

   LumA

31.1

5.5

46

 

   LumB

35.1

7.9

35

 

   HER2-enriched

27.8

6.4

14

 

   Normal-like

27.5

3.6

17

 

   Non-classified

29.9

6.4

24

 

   Non-GEX

34.3

8.7

10

 

Family status

   

0.007

   BRCA1

29.8

7.4

15

 

   BRCA2

36.5

8.3

13

 

   Familial

30.3

6.6

43

 

   Sporadic

29.9

6.0

115

 

ER status3

   

0.005

   Positive

31.3

7.0

113

 

   Negative

28.6

5.4

61

 

PgR status3

   

0.02

   Positive

31.3

6.8

108

 

   Negative

28.9

6.0

66

 

Histological grade

   

0.7

   Grade 1

29.6

6.7

18

 

   Grade 2

30.9

6.2

48

 

   Grade 3

29.7

7.0

82

 

Node status

   

0.7

   Positive

29.8

6.5

49

 

   Negative

30.3

6.4

117

 

Age (years)

   

0.5

   < 50

30.0

6.4

108

 

   ≥ 50

30.7

6.4

71

 

Size (mm)

   

0.3

   ≤ 20

30.6

6.4

90

 

   > 20

28.7

6.3

76

 

Tissue

   

2 × 10 -4

   Normal breast

27.3

0.9

4

 

   Tumour

30.5

6.6

189

 
  1. 1t-test for two categories, otherwise one-way analysis of variance. P-values < 0.05 in bold.
  2. 2P-value between subtypes basal-like, lumA, lumB, HER2-enriched and normal-like.
  3. 3Tumours with an ER or PgR content of at least 25 fmol/mg protein were considered positive for ER and PgR, respectively.
  4. ER, oestrogen receptor; GEX, gene expression; HER2, human epidermal growth factor receptor 2; lumA, luminal A; lumB, luminal B; na, not available; PgR, progesterone receptor.
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Breast Cancer Research

ISSN: 1465-542X

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