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Table 2 Frequency and level of methylation of genes by sample type

From: Methylation profiling of ductal carcinoma in situand its relationship to histopathological features

 

Negative for methylation

Positive for methylation

 

Frequencies (%)

Gene

Sample type

No methylation

Low heterogenous methylation

Low homogenous methylation

High heterogenous methylation

Moderate homogenous methylation

High homogenous methylation

Total positive for methylation

No data

APC

Normal

15/15 (100)

0/15 (0)

0/15 (0)

0/15 (0)

0/15 (0)

0/15 (0)

0/15 (0)

3

 

Pure ductal carcinoma in situ (DCIS)

29/70 (41.4)

0/70 (0)

4/70 (5.7)

4/70 (5.7)

27/70 (38.6)

6/70 (8.6)

37/70 (52.9)

2

 

Mixed DCIS

7/10 (70)

1/10 (10)

0/10 (0)

0/10 (0)

1/10 (10)

1/10 (10)

2/10 (20)

0

BRCA1

Normal

17/17 (100)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

1

 

Pure DCIS

70/70 (100)

0/70 (0)

0/70 (0)

0/70 (0)

0/70 (0)

0/70 (0)

0/70 (0)

2

 

Mixed DCIS

10/10 (100)

0/10 (0)

0/10 (0)

0/10 (0)

0/10 (0)

0/10 (0)

0/10 (0)

0

CDH1

Normal

16/17 (94.1)

0/17 (0)

1/17 (5.9)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

1

 

Pure DCIS

62/69 (89.9)

0/69 (0)

5/69 (7.2)

2/69 (2.9)

0/69 (0)

0/69 (0)

2/69 (2.9)

3

 

Mixed DCIS

9/10 (90)

0/10 (0)

1/10 (10)

0/10 (0)

0/10 (0)

0/10 (0)

0/10 (0)

0

CDH13

Normal

16/18 (88.9)

0/18 (0)

1/18 (5.6)

0/18 (0)

1/18 (5.6)

0/18 (0)

1/18 (5.6)

0

 

Pure DCIS

30/70 (42.9)

0/70 (0)

0/70 (0)

32/70 (45.7)

6/70 (8.6)

2/70 (2.9)

40/70 (57.1)

2

 

Mixed DCIS

6/10 (60)

1/10 (10)

0/10 (0)

2/10 (20)

0/10 (0)

1/10 (10)

3/10 (30)

0

FOXC1

Normal

16/17 (94.1)

0/17 (0)

1/17 (5.9)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

1

 

Pure DCIS

59/70 (84.3)

1/70 (1.4)

3/70 (4.3)

6/70 (8.6)

1/70 (1.4)

0/70 (0)

7/70 (10)

2

 

Mixed DCIS

7/10 (70)

1/10 (10)

0/10 (0)

1/10 (10)

1/10 (10)

0/10 (0)

2/10 (20)

0

GSTP1

Normal

15/16 (93.8)

0/16 (0)

1/16 (6.3)

0/16 (0)

0/16 (0)

0/16 (0)

0/16 (0)

2

 

Pure DCIS

30/70 (42.9)

4/70 (5.7)

1/70 (1.4)

10/70 (14.3)

7/70 (10)

18/70 (25.7)

35/70 (50)

2

 

Mixed DCIS

7/10 (70)

0/10 (0)

0/10 (0)

1/10 (10)

1/10 (10)

1/10 (10)

3/10 (30)

0

MAL

Normal

14/15 (93.3)

0/15 (0)

1/15 (6.7)

0/15 (0)

0/15 (0)

0/15 (0)

0/15 (0)

3

 

Pure DCIS

31/69 (44.9)

5/69 (7.2)

1/69 (1.4)

32/69 (46.3)

0/69 (0)

0/69 (0)

32/69 (46.3)

3

 

Mixed DCIS

3/10 (30)

0/10 (0)

0/10 (0)

7/10 (70)

0/10 (0)

0/10 (0)

7/10 (70)

0

RARβ

Normal

17/17 (100)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

0/17 (0)

1

 

Pure DCIS

43/71 (60.6)

0/71 (0)

1/71 (1.4)

1/71 (1.4)

16/71 (22.5)

10/71 (14.1)

27/71 (38.0)

1

 

Mixed DCIS

7/10 (70)

0/10 (0)

0/10 (0)

0/10 (0)

0/10 (0)

3/10 (30)

3/10 (30)

0

RASSF1A

Normal

15/18 (83.3)

1/18 (5.6)

2/18 (11.1)

0/18 (0)

0/18 (0)

0/18 (0)

0/18 (0)

0

 

Pure DCIS

6/70 (8.6)

0/70 (0)

2/70 (2.9)

0/70 (0)

32/70 (45.7)

30/70 (42.9)

62/70 (88.6)

2

 

Mixed DCIS

0/10 (0)

0/10 (0)

0/10 (0)

0/10 (0)

4/10 (40)

6/10 (60)

10/10 (100)

0

TWIST1

Normal

16/17 (94.1)

0/17 (0)

0/17 (0)

1/17 (5.9)

0/17 (0)

0/17 (0)

1/17 (5.9)

1

 

Pure DCIS

34/71 (47.9)

4/71 (5.6)

4/71 (5.6)

26/71 (36.6)

3/71 (4.2)

0/71 (0)

29/71 (41.4)

1

 

Mixed DCIS

6/10 (60)

0/10 (0)

0/10 (0)

3/10 (30)

0/10 (0)

1/10 (10)

4/10 (40)

0

WIF1

Normal

13/18 (72.2)

0/18 (0)

0/18 (0)

5/18 (27.8)

0/18 (0)

0/18 (0)

5/18 (27.8)

0

 

Pure DCIS

31/70 (44.3)

0/70 (0)

5/70 (7.1)

31/70 (44.3)

3/70 (4.3)

0/70 (0)

34/70 (48.6)

2

 

Mixed DCIS

4/10 (40)

0/10 (0)

1/10 (10)

3/10 (30)

2/10 (20)

0/10 (0)

5/10 (50)

0