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Table 3 Hazard ratios (HRs) for the association between the methylation levels at the ten most significant variably methylated regions (VMRs) and overall survival in the Melbourne Collaborative Cohort Study (MCCS) and The Cancer Genome Atlas (TCGA) dataset

From: Association of variably methylated tumour DNA regions with overall survival for invasive lobular breast cancer

MCCS

TCGA

    

Adjusted for age

Adjusted for age and stage

   

Adjusted for age

Adjusted for age and stage

Gene*

Averagemethylation**

HR (95% CI)

P

HR (95% CI)

P

HR (95% CI)

P

Average methylation**

HR (95% CI)

P

HR (95% CI)

P

HR (95% CI)

P

APC

39.1

1.28 (1.07–1.53)

0.01

1.24 (1.04–1.47)

0.02

1.24 (1.04–1.49)

0.01

35.9

1.16 (0.89–1.51)

0.28

1.12 (0.86–1.44)

0.41

1.06 (0.82–1.38)

0.63

TMEM101

39.6

1.21 (1.00–1.48)

0.06

1.19 (0.98–1.44)

0.08

1.22 (0.99–1.51)

0.06

39

1.13 (0.77–1.66)

0.52

1.12 (0.78–1.60)

0.54

1.27 (0.87–1.85)

0.21

ISM1

22.8

1.34 (0.97–1.85)

0.07

1.02 (0.76–1.38)

0.89

0.90 (0.65–1.26)

0.54

19.2

1.48 (0.91–2.41)

0.11

1.38 (0.80–2.37)

0.25

1.48 (0.86–2.54)

0.15

ASCL2

44.4

1.16 (0.81–1.65)

0.42

0.93 (0.66–1.31)

0.69

0.99 (0.71–1.38)

0.95

44.6

1.28 (0.74–2.20)

0.38

1.17 (0.68–2.02)

0.57

1.44 (0.81–2.57)

0.22

HIST3H2A

20.1

1.28 (1.02–1.62)

0.03

1.08 (0.86–1.35)

0.53

1.03 (0.82–1.29)

0.78

20.1

1.35 (1.00–1.83)

0.05

1.28 (0.94–1.73)

0.12

1.23 (0.90–1.68)

0.18

NKX6

29

1.25 (0.98–1.60)

0.07

1.06 (0.83–1.35)

0.63

1.01 (0.79–1.29)

0.91

30.2

2.06 (1.32–3.21)

0.001

1.88 (1.21–2.92)

0.01

2.01 (1.28–3.17)

0.002

HCG4P3

29.1

1.24 (0.93–1.67)

0.14

1.13 (0.84–1.53)

0.41

1.25 (0.91–1.72)

0.16

31.1

2.04 (1.32–3.15)

0.001

1.80 (1.13–2.85)

0.01

1.69 (1.05–2.72)

0.03

HES5

19

1.11 (0.88–1.40)

0.38

1.11 (0.88–1.40)

0.37

1.13 (0.89–1.42)

0.29

20.9

1.26 (0.88–1.80)

0.21

1.15 (0.80–1.65)

0.45

1.13 (0.76–1.68)

0.53

CELF2

33.4

1.30 (1.07–1.58)

0.01

1.12 (0.93–1.36)

0.23

1.13 (0.93–1.36)

0.21

35

1.50 (1.06–2.12)

0.02

1.44 (1.01–2.05)

0.04

1.51 (1.07–2.13)

0.02

EFCAB4B

32.8

1.01 (0.83–1.23)

0.88

0.96 (0.80–1.15)

0.63

0.99 (0.83–1.19)

0.99

34.5

1.41 (1.05–1.89)

0.02

1.32 (0.98–1.78)

0.07

1.25 (0.93–1.67)

0.14

  1. *Gene: Gene associated with the variably methylated regions (VMRs), most of the VMRs were located in the promoter region of the genes, **Average methylation: Average methylation level (beta-value) of the samples across the VMRs, HR hazard ratio, CI confidence interval
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Clinical Epigenetics

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