Table 4 Genes with large probabilities of hypermethylation or hypomethylation in the two pathways in the HG-DCIS study.

From: Gene-set Analysis with CGI Information for Differential DNA Methylation Profiling

P53 pathway

Difference in DNAm

Difference in Gene Exp

Pr(hypermethylation)

Mean

SD

Mean

SD

 GTSE1

0.91

0.20

0.11

2.65

0.83

 TSC2

0.95

0.19

0.07

0.09

0.61

Pr(hypomethylation)

 ADGRB1

0.95

−0.29

0.10

–

–

 CASP3

0.96

−0.31

0.11

−0.22

0.46

 CASP9

0.91

−0.13

0.10

0.58

0.42

 CCND1

0.91

−0.15

0.16

1.48

1.17

 CCND3

0.94

−0.18

0.10

−0.06

0.51

 CDKN2A

0.91

−0.15

0.14

1.34

0.86

 TP73

0.93

−0.25

0.14

1.11

0.66

mTor pathway

Pr(hypermethylation)

 AKT3

0.94

0.22

0.15

−1.87

0.83

 EIF4E2

0.95

0.17

0.13

−1.10

0.56

 INS

0.95

0.24

0.17

–

–

 PDPK1

0.91

0.21

0.19

−0.04

0.39

 PIK3CB

0.97

0.20

0.08

−0.60

0.63

 PIK3CD

0.95

0.18

0.12

−0.39

1.28

 PIK3R3

0.94

0.15

0.11

1.08

0.73

 PRKCA

0.94

0.23

0.15

−0.50

1.21

 PRKCB

0.95

0.18

0.07

3.45

1.77

 PRKCG

0.95

0.18

0.12

–

–

 RPS6KA1

0.92

0.12

0.08

−1.36

0.54

 RPS6KA2

0.95

0.15

0.08

−1.22

0.71

 RPTOR

0.97

0.23

0.10

0.04

0.77

 STK11

0.96

0.20

0.11

−0.12

0.38

 TSC2

0.95

0.19

0.07

0.09

0.61

Pr(hypomethylation)

 PDPK1

0.92

−0.20

0.06

−0.04

0.39

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