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Table 1 Performance comparison for binary-class datasets.

From: Recursive gene selection based on maximum margin criterion: a comparison with SVM-RFE

Classifier+Selection criterion

Number of genes

 

10

20

30

50

100

Colon cancer

     

NMC+S2N

12.2 ± 0.6

12.5 ± 0.6

12.3 ± 0.6

12.8 ± 0.6

12.9 ± 0.5

NMC+MMC-RFE(U)

13.9 ± 0.6

12.5 ± 0.6

12.5 ± 0.6

12.1 ± 0.6

11.2 ± 0.5

NMC+MMC-RFE(O)

13.4 ± 0.6

11.7 ± 0.6

11.5 ± 0.6

11.3 ± 0.6

11.2 ± 0.6

NMC+SVM-RFE(H)

16.2 ± 0.7

14.6 ± 0.6

13.7 ± 0.6

12.5 ± 0.6

11.6 ± 0.6

NMC+SVM-RFE(S)

13.3 ± 0.6

11.2 ± 0.6

10.7 ± 0.5

10.5 ± 0.5

10.9 ± 0.5

MMC+MMC-RFE(U)

13.6 ± 0.6

12.1 ± 0.6

11.9 ± 0.6

11.7 ± 0.5

11.0 ± 0.5

MMC+MMC-RFE(O)

13.2 ± 0.6

11.7 ± 0.6

11.5 ± 0.6

11.0 ± 0.6

11.1 ± 0.6

SVM+SVM-RFE(H)

18.3 ± 0.6

16.2 ± 0.7

15.8 ± 0.7

15.0 ± 0.6

15.0 ± 0.6

SVM+SVM-RFE(S)

13.5 ± 0.5

10.7 ± 0.5

10.2 ± 0.5

10.0 ± 0.5

10.5 ± 0.6

Prostate cancer

     

NMC+S2N

10.1 ± 0.4

11.3 ± 0.5

12.3 ± 0.6

13.6 ± 0.6

16.0 ± 0.7

NMC+MMC-RFE(U)

9.9 ± 0.5

10.4 ± 0.5

10.8 ± 0.5

11.6 ± 0.5

13.4 ± 0.6

NMC+MMC-RFE(O)

9.6 ± 0.5

9.9 ± 0.5

10.3 ± 0.6

11.2 ± 0.6

13.5 ± 0.7

NMC+SVM-RFE(H)

9.6 ± 0.4

10.1 ± 0.5

10.2 ± 0.5

10.8 ± 0.5

12.2 ± 0.6

NMC+SVM-RFE(S)

9.7 ± 0.4

9.6 ± 0.4

10.0 ± 0.5

10.7 ± 0.5

12.4 ± 0.6

MMC+MMC-RFE(U)

8.8 ± 0.4

8.4 ± 0.4

8.4 ± 0.4

8.4 ± 0.4

8.6 ± 0.4

MMC+MMC-RFE(O)

8.5 ± 0.4

8.2 ± 0.4

7.9 ± 0.4

7.9 ± 0.4

8.1 ± 0.5

SVM+SVM-RFE(H)

9.9 ± 0.5

9.1 ± 0.4

9.3 ± 0.4

9.2 ± 0.4

9.1 ± 0.4

SVM+SVM-RFE(S)

8.5 ± 0.4

8.0 ± 0.4

8.5 ± 0.4

8.4 ± 0.4

8.8 ± 0.4

Leukemia

     

NMC+S2N

5.6 ± 0.7

5.8 ± 0.6

5.4 ± 0.6

3.8 ± 0.5

3.2 ± 0.5

NMC+MMC-RFE(U)

5.7 ± 0.6

3.9 ± 0.5

3.8 ± 0.5

2.2 ± 0.4

0.8 ± 0.2

NMC+MMC-RFE(O)

5.8 ± 0.6

2.8 ± 0.5

1.8 ± 0.4

0.8 ± 0.2

0.4 ± 0.2

NMC+SVM-RFE(H)

5.4 ± 0.6

3.8 ± 0.5

3.4 ± 0.5

1.8 ± 0.4

0.6 ± 0.2

NMC+SVM-RFE(S)

6.0 ± 0.6

3.1 ± 0.4

2.0 ± 0.4

1.5 ± 0.3

0.9 ± 0.3

MMC+MMC-RFE(U)

5.6 ± 0.6

3.7 ± 0.5

3.7 ± 0.5

2.3 ± 0.4

0.8 ± 0.3

MMC+MMC-RFE(O)

5.8 ± 0.6

2.8 ± 0.5

1.6 ± 0.3

0.6 ± 0.2

0.3 ± 0.2

SVM+SVM-RFE(H)

4.1 ± 0.5

3.0 ± 0.4

2.9 ± 0.4

1.3 ± 0.3

1.3 ± 0.3

SVM+SVM-RFE(S)

3.8 ± 0.5

3.1 ± 0.4

2.5 ± 0.4

1.3 ± 0.3

1.3 ± 0.3

  1. The average error and standard error rates (%) for Colon cancer, Prostate cancer and Leukemia, when the number of genes is {10, 20, 30, 50, 100}. SVM-RFE(S) shows the best result with respect to the C parameter; NMC+SVM-RFE(S): C = 0.01, SVM+SVM-RFE(S): C = 0.01 for Colon cancer; NMC+SVM-RFE(S): C = 0.01, SVM+SVM-RFE(S): C = 0.01 for Prostate cancer; NMC+SVM-RFE(S): C = 0.001, SVM+SVM-RFE(S): C = 100 for Leukemia.
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BMC Bioinformatics

ISSN: 1471-2105

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