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Table 9 Lymphoma cancer data set

From: Identification of differentially expressed genes by means of outlier detection

  

Ns

  

19

24

64

88

96

I

ORdensity

100

100

100

100

100

 

limma

95.24

100

100

100

-

 

SAM

100

100

100

-

-

II

A vs B

13

17

14

17

-

 

A vs C

14

16

42

63

-

 

B vs C

17

23

58

-

-

III

ORdensity

10.2

13.2

40.4

61.4

65.3

  

(1.48)

(2.84)

(2.01)

(2.27)

(3.13)

 

limma

7.9

9.7

27.4

36.7

-

  

(0.87)

(1.57)

(2.17)

(1.34)

-

 

SAM

14.2

17.3

51.4

-

-

  

(2.82)

(3.97)

(8.85)

-

-

  1. Results for different number (Ns) of selected genes: 19 with ORdensity relaxed selection; 24 with limma and Bonferroni; 64 with SAM; 88 with limma and BH, and 96 total potential DE genes. Rows I present the leave-one-out cross-validation correct classification rate. In bold, the results for the genes selected under standard criteria for ORdensity, limma and SAM procedures; in rows II, number of common selected genes between the ORdensity, limma and SAM approaches; in rows III, mean and standard deviation (in brackets) of the number of genes that for 10 subsamples were always kept selected