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Table 2 Differences between cancer and all other genes for 4 cancer gene predictors in 7 datasets

From: How to get the most from microarray data: advice from reverse genomics

Dataset

Trait

Mean CG

Mean OG

Z

P value

Rank

BC_GSE10780

-LOG(P)

6.09

5.84

2.89

0.003852

6

m(AN)

6.32

6.16

3.68

0.000233

4

m(T)

6.51

6.18

3.3

0.000967

5

FC

1.33

1.19

4.65

3.32E-06

3

sd(AN)

0.42

0.33

5.61

2.02E-08

1

sd(T)

0.62

0.45

5.37

7.87E-08

2

BC_GSE3716

-LOG(P)

0.62

0.64

1.04

0.29834

3

m(AN)

7.34

7.42

0.37

0.711382

6

m(T)

7.41

7.51

0.75

0.453255

4

FC

1.21

1.21

0.58

0.561915

5

sd(AN)

0.84

0.79

2.79

0.005271

2

sd(T)

0.89

0.81

3.55

0.000385

1

CC_GSE31737

-LOG(P)

3.51

2.53

4.64

3.48E-06

6

m(AN)

5.74

4.77

5.54

3.02E-08

5

m(T)

5.89

4.77

6.19

6.02E-10

4

FC

1.40

1.19

6.58

4.7E-11

2

sd(AN)

0.38

0.22

6.52

7.03E-11

3

sd(T)

0.56

0.24

7.53

5.07E-14

1

LC_GSE19188

-LOG(P)

6.55

5.37

1.15

0.250144

6

m(AN)

6.49

6.06

4.74

2.14E-06

4

m(T)

6.61

6.12

4,47

7.82E-06

5

FC

1.58

1.29

5.62

1.91E-08

3

sd(AN)

0.34

0.17

7.86

3.84E-15

2

sd(T)

0.93

0.56

10.77

4.77E-27

1

LC_GSE18842

-LOG(P)

5.98

4.31

3.08

0.00207

6

m(AN)

6.24

5.75

6.26

3.85E-10

4

m(T)

6.47

5.75

6.56

5.38E-11

3

FC

1.66

1.31

6.1

1.06E-09

5

sd(AN)

0.43

0.33

8.21

2.21E-16

2

sd(T)

0.75

0.47

8.72

2.78E-18

1

PC_GSE6919

-LOG(P)

2.28

1.75

3.62

0.000295

4

m(AN)

7.41

7.01

1.87

0.061484

5

m(T)

7.42

6.99

1.86

0.062886

6

FC

1.32

1.21

4,57

4.88E-06

2

sd(AN)

0.61

0.59

3.87

0.000109

3

sd(T)

0.74

0.64

4.71

2.48E-06

1

PC_GSE21034

-LOG(P)

2.55

1.68

3.97

7.19E-05

6

m(AN)

8.65

7.86

6.82

9.1E-12

4

m(T)

8.59

7.82

5.87

4.36E-09

5

FC

1.21

1.12

6.78

1.2E-11

3

sd(AN)

0.31

0.27

6.3

2.98E-10

3

sd(T)

0.37

0.28

6.83

8.49E-12

1

  1. CG, cancer genes; OG, other genes. Statistics from nonparametric Mann-Whitney test; rank, rank of the variable for a given dataset based on Z score; m(AN), mean expression in adjacent normal tissue: m(T), mean expression in tumor tissue; FC, fold change; SD(AN), standard deviation of the gene expression values in adjacent normal tissue; SD(T), standard deviation of the gene expression values in tumor tissue.