Table 2 Hypermethylation frequencies for each gene in each group

ALX4

17.84

17

(10.78–27.10)

7.41

2

(0.91–24.29)

4.12

4

(1.13–10.22)

1.69

1

(0.04–9.09)

APC

82.11

78

(72.90–89.22)

44.44

12

(25.48–64.67)

54.64

53

(44.21–64.78)

67.80

40

(54.36–79.38)

BMP3

33.68

32

(24.31–44.11)

18.52

5

(6.30–38.08)

3.09

3

(0.64–8.77)

10.17

6

(3.82–20.8)

BNC1

35.79

34

(26.21–46.30)

7.41

2

(0.91–24.29)

5.15

5

(1.69–11.62)

6.78

4

(1.88–16.46)

BRCA1

10.53

10

(5.16–18.51)

14.81

4

(4.19–33.73)

7.22

7

(2.95–14.30)

32.20

19

(20.62–45.64)

CDKN2A

6.32

6

(2.35–13.24)

3.70

1

(0.09–18.97)

2.06

2

(0.25–7.25)

11.86

7

(4.91–22.93)

CDKN2B

12.63

12

(6.70–21.03)

7.41

2

(0.91–24.29)

5.15

5

(1.69–11.62)

11.86

7

(4.91–22.93)

CHFR

1.05

1

(0.03–5.73)

0

0

(0.00–12.77)

3.09

3

(0.64–8.77)

1.69

1

(0.04–9.09)

ESR1

77.89

74

(68.21–85.77)

62.96

17

(42.37–80.60)

60.82

59

(50.39–70.58)

76.27

45

(63.41–86.38)

EYA2

13.68

13

(7.49–22.26)

0

0

(0.00–12.77)

8.25

8

(3.63–15.61)

15.25

9

(7.22–26.99)

GSTP1

3.16

3

(0.66–8.95)

0

0

(0.00–12.77)

1.03

1

(0.03–5.61)

0

0

(0–6.06)

HIC1

15.79

15

(9.12–24.70)

0

0

(0.00–12.77)

6.19

6

(2.30–12.98)

6.78

4

(1.88–16.46)

MESTv2

78.95

75

(69.38–86.64)

44.44

12

(25.48–64.67)

58.76

57

(48.31–68.67)

66.10

39

(52.61–77.92)

MGMT

5.26

5

(1.73–11.86)

0

0

(0.00–12.77)

3.09

3

(0.64–8.77)

0

0

(0–6.06)

MLH1

14.74

14

(8.30–23.49)

22.22

6

(8.62–42.26)

7.22

7

(2.95–14.30)

28.81

17

(17.76–42.07)

NPTX2

74.74

71

(64.78–83.10)

62.96

17

(42.37–80.60)

42.27

41

(32.30–52.72)

49.15

29

(35.89–62.50)

NEUROG1

10.53

10

(5.16–18.51)

11.11

3

(2.35–29.16)

6.19

6

(2.30–12.98)

6.78

4

(1.88–16.46)

RARB

46.32

44

(36.02–56.85)

44.44

12

(25.48–64.67)

28.87

28

(20.11–38.95)

45.76

27

(32.72–59.24)

RASSF1A

42.11

40

(32.04–52.67)

14.81

4

(4.19–33.73)

11.34

11

(5.80–19.39)

16.95

10

(8.44–28.97)

SFRP1

44.21

42

(34.02–54.77)

25.93

7

(11.11–46.28)

17.53

17

(10.55–26.57)

18.64

11

(9.69–30.91)

SFRP2

38.95

37

(29.11–49.50)

18.52

5

(6.30–38.08)

25.77

25

(17.42–35.65)

6.78

4

(1.88–16.46)

SEPT9v2

14.74

14

(8.30–23.49)

0

0

(0.00–12.77)

3.09

3

(0.64–8.77)

1.69

1

(0.04–9.09)

SST

64.21

61

(53.72–73.79)

59.26

16

(38.80–77.61)

30.93

30

(21.93–41.12)

25.42

15

(14.98–38.44)

TFPI2

23.16

22

(15.12–32.94)

3.70

1

(0.09–18.97)

2.06

2

(0.25–7.25)

0

0

(0–6.06)

TAC1

58.95

56

(48.38–68.94)

14.81

4

(4.19–33.73)

35.05

34

(25.64–45.41)

25.42

15

(14.98–38.44)

VIM

3.16

3

(0.66–8.95)

0

0

(0.00–12.77)

0

0

(0–3.73)

0

0

(0–6.06)

WNT5A

8.42

8

(3.71–15.92)

0

0

(0.00–12.77)

1.03

1

(0.03–5.61)

0

0

(0–6.06)

PENK

2.11

2

(0.26–7.40)

0

0

(0.00–12.77)

0

0

(0–3.73)

0

0

(0–6.06)