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Table 1 Molecular pathways and properties of their expression networks

From: Improved prognostic classification of breast cancer defined by antagonistic activation patterns of immune response pathway modules

ER-

      

Pathway

nG

nE

fE

Pval(signif)

fconsE

Pval(consist)

MYC

76

472

0.17

< 0.001

0.88

< 0.001

E2F3

104

793

0.15

< 0.001

0.58

< 0.001

RAS

135

1387

0.15

< 0.001

0.63

< 0.001

ERBB2

228

4223

0.16

< 0.001

0.84

< 0.001

EGFR

180

2395

0.15

< 0.001

0.66

< 0.001

AKT

41

346

0.42

< 0.001

1.00

< 0.001

IL12

17

38

0.28

< 0.001

0.95

< 0.001

IL4

11

9

0.16

0.11

1.00

< 0.001

IL2

19

22

0.13

0.19

0.73

0.009

IL13

7

6

0.29

0.01

1.00

< 0.001

INFG

40

222

0.28

< 0.001

0.90

< 0.001

TGFB

62

479

0.25

< 0.001

0.92

< 0.001

ER+

      

Pathway

nG

nE

fE

Pval(signif)

fconsE

Pval(consist)

MYC

76

749

0.26

0.24

0.79

< 0.001

E2F3

104

1285

0.24

0.58

0.57

< 0.001

RAS

135

2231

0.25

0.48

0.57

< 0.001

ERBB2

228

7336

0.28

0.01

0.74

< 0.001

EGFR

180

4286

0.27

0.13

0.66

< 0.001

AKT

41

676

0.82

< 0.001

1.00

< 0.001

IL12

17

32

0.23

0.53

0.97

< 0.001

IL4

11

10

0.18

0.72

0.70

0.06

IL2

19

40

0.23

0.51

0.60

0.08

IL13

7

6

0.29

0.28

0.50

0.35

INFG

40

284

0.36

0.003

0.83

< 0.001

TGFB

62

713

0.38

< 0.001

0.86

< 0.001

  1. Properties of the inferred relevance expression correlation networks in ER- and ER+ breast cancer. For each molecular pathway we give the number of pathway genes present in the expression matrix (nG), the number and fraction of edges (i.e significant pairwise correlations between genes) (nE & fE), the significance of the average connectivity of the network (Pval(signif)), the fraction of edges that are consistent with the prior in-vitro information (fconsE), the corresponding p-value of significance (Pval(consist)). P-values were estimated using 1000 permutations.
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BMC Cancer

ISSN: 1471-2407

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