Table 6

Validation results for WGCNA* mortality groups in three Affymetrix data sets

#

Data Set

Marker Probeset

Hazard Ratio

P-values

Validates at 0.1


ATP1B1

TP53

TGFBR2

Mod.

High

Mod.

High

Model


1

Miller 2005

1

1

1

0.88

2.35

0.693

0.053

0.173

yes

2

Miller 2005

1

1

2

0.94

2.39

0.853

0.049

0.184

yes

3

Miller 2005

1

2

1

1.10

0.93

0.777

0.884

0.944

no

4

Miller 2005

1

2

2

1.17

0.94

0.611

0.914

0.865

no

5

Miller 2005

2

1

1

0.82

1.18

0.538

0.750

0.754

no

6

Miller 2005

2

1

2

0.88

1.20

0.676

0.727

0.840

no

7

Miller 2005

2

2

1

1.05

0.32

0.873

0.258

0.371

no

8

Miller 2005

2

2

2

1.12

0.32

0.709

0.265

0.351

no

9

Pawitan 2005

1

1

1

0.64

3.17

0.429

0.024

0.062

yes

10

Pawitan 2005

1

1

2

0.41

2.91

0.158

0.036

0.026

yes

11

Pawitan 2005

1

2

1

0.93

4.89

0.894

0.001

0.014

yes

12

Pawitan 2005

1

2

2

0.41

4.05

0.156

0.004

0.004

yes

13

Pawitan 2005

2

1

1

0.64

3.22

0.430

0.023

0.060

yes

14

Pawitan 2005

2

1

2

0.41

2.95

0.159

0.034

0.025

yes

15

Pawitan 2005

2

2

1

0.92

4.37

0.880

0.002

0.022

yes

16

Pawitan 2005

2

2

2

0.41

3.62

0.152

0.008

0.007

yes


The Pawitan 2005 data set validated at the 0.1 level for all eight probe set combinations for the high mortality group. The Miller 2005 data set validated for two probe set combinations. The WGCNA* moderate mortality group did not validate. None of the probe set combinations validated for the Sotiriou 2006 data set (not shown). The rows highlighted bold indicate probe set combinations with Kaplan-Meier plots in Figure 5. Probe set abbreviations are as follows ATP1B1: 1 = 201242_s_at, 2 = 201243_s_at; TP53: 1 = 201746_at, 2 = 211300_s_at; TGFBR2: 1 = 207334_s_at, 2 = 208944_at.

Presson et al. BMC Cancer 2011 11:230   doi:10.1186/1471-2407-11-230

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