Table 3

The FS methods sorted by the AUC metric achieved in validation test for each cancer disease using the RF classifier
FS methods 5-CV Hold-out Validation
AUC TNR TPR AUC TNR TPR
 BREAST mAP-KL 0.80 (0.11) 0.79 (0.16) 0.73 (0.18) 0.87 1.00 0.50
maxT(200) 0.85 (0.11) 0.83 (0.13) 0.69 (0.17) 0.83 0.71 0.83
PLS-CV 0.91 (0.08) 0.85 (0.13) 0.77 (0.15) 0.82 0.86 0.42
RF-MDA 0.91 (0.07) 0.91 (0.11) 0.70 (0.16) 0.82 0.86 0.75
maxT 0.87 (0.10) 0.84 (0.13) 0.74 (0.18) 0.77 0.71 0.58
SAM 0.82 (0.11) 0.79 (0.15) 0.69 (0.19) 0.77 0.71 0.75
SNR 0.86 (0.10) 0.85 (0.14) 0.72 (0.20) 0.77 0.71 0.67
BGA-COA 0.83 (0.10) 0.79 (0.15) 0.67 (0.15) 0.76 0.57 0.58
HykGene 0.91 (0.06) 0.86 (0.12) 0.76 (0.17) 0.76 0.71 0.75
Rnd 0.79 (0.01) 0.76 (0.03) 0.65 (0.03) 0.76 0.70 0.78
cat 0.91 (0.07) 0.86 (0.12) 0.78 (0.16) 0.75 0.71 0.50
PCA 0.72 (0.14) 0.66 (0.18) 0.56 (0.19) 0.75 0.43 0.67
ODP 0.83 (0.10) 0.80 (0.14) 0.69 (0.18) 0.74 0.71 0.58
t-test 0.82 (0.10) 0.81 (0.14) 0.69 (0.19) 0.73 0.71 0.58
eBayes - - - - - -
COLON mAP-KL 0.99 (0.03) 0.95 (0.12) 0.97 (0.09) 0.89 0.71 0.84
BGA-COA 0.98 (0.06) 0.89 (0.22) 0.87 (0.19) 0.87 0.71 0.80
Rnd 0.98 (0.02) 0.90 (0.06) 0.90 (0.03) 0.84 0.73 0.82
maxT(200) 1.00 (0.00) 0.94 (0.13) 0.94 (0.13) 0.83 0.71 0.88
PCA 0.79 (0.19) 0.80 (0.23) 0.72 (0.26) 0.83 0.43 0.84
ODP 0.99 (0.03) 0.97 (0.13) 0.93 (0.13) 0.82 0.71 0.80
HykGene 0.98 (0.06) 0.93 (0.14) 0.95 (0.12) 0.81 0.71 0.88
RF-MDA 0.99 (0.03) 0.96 (0.11) 0.93 (0.13) 0.81 0.71 0.80
eBayes 0.99 (0.03) 0.97 (0.11) 0.93 (0.13) 0.80 0.71 0.80
SAM 1.00 (0.02) 0.99 (0.09) 0.93 (0.13) 0.80 0.71 0.80
cat 0.99 (0.04) 0.97 (0.14) 0.93 (0.13) 0.80 0.57 0.80
maxT 1.00 (0.02) 0.97 (0.10) 0.94 (0.13) 0.79 0.71 0.80
PLS-CV 1.00 (0.02) 0.94 (0.16) 0.94 (0.13) 0.79 0.71 0.80
SNR 0.99 (0.03) 1.00 (0.00) 0.93 (0.13) 0.79 0.71 0.80
t-test 0.99 (0.03) 0.99 (0.05) 0.93 (0.13) 0.79 0.71 0.80
LEUKEMIA BGA-COA 0.99 (0.04) 1.00 (0.00) 0.81 (0.27) 1.00 1.00 0.86
maxT(200) 1.00 (0.00) 1.00 (0.00) 1.00 (0.00) 1.00 1.00 0.86
eBayes 1.00 (0.00) 1.00 (0.00) 0.91 (0.19) 1.00 0.95 0.93
RF-MDA 1.00 (0.00) 1.00 (0.00) 1.00 (0.00) 0.99 1.00 0.86
PLS-CV 1.00 (0.00) 1.00 (0.00) 0.89 (0.25) 0.99 0.95 0.93
SAM 1.00 (0.00) 1.00 (0.00) 0.91 (0.19) 0.99 0.95 0.93
cat 1.00 (0.00) 1.00 (0.00) 0.95 (0.14) 0.99 0.95 0.93
HykGene 1.00 (0.00) 1.00 (0.00) 0.90 (0.20) 0.97 0.90 0.93
Rnd 0.99 (0.01) 0.98 (0.02) 0.86 (0.06) 0.97 0.99 0.75
maxT 1.00 (0.02) 0.98 (0.07) 0.85 (0.27) 0.96 1.00 0.64
mAP-KL 1.00 (0.00) 1.00 (0.00) 0.97 (0.17) 0.71 0.90 0.43
PCA 0.56 (0.16) 1.00 (0.00) 0.00 (0.00) 0.64 0.95 0.14
SNR 0.50 (0.00) 1.00 (0.00) 0.00 (0.00) 0.50 1.00 0.00
t-test 0.50 (0.00) 1.00 (0.00) 0.00 (0.00) 0.50 1.00 0.00
ODP - - - - - -
PROSTATE SAM 0.96 (0.04) 0.97 (0.05) 0.88 (0.10) 0.92 0.00 1.00
maxT(200) 0.95 (0.10) 0.95 (0.10) 0.89 (0.10) 0.88 0.00 1.00
PLS-CV 0.97 (0.03) 0.95 (0.08) 0.92 (0.07) 0.87 0.33 1.00
eBayes 0.96 (0.04) 0.98 (0.04) 0.89 (0.10) 0.86 0.00 1.00
RF-MDA 0.97 (0.04) 0.97 (0.06) 0.90 (0.09) 0.83 0.11 1.00
mAP-KL 0.93 (0.06) 0.90 (0.09) 0.85 (0.11) 0.80 1.00 0.36
BGA-COA 0.95 (0.05) 0.91 (0.09) 0.89 (0.10) 0.73 0.22 0.88
Rnd 0.93 (0.02) 0.89 (0.04) 0.86 (0.03) 0.70 0.18 0.94
HykGene 1.00 (0.00) 1.00 (0.00) 1.00 (0.00) 0.69 0.89 0.24
maxT 0.89 (0.07) 0.88 (0.09) 0.79 (0.13) 0.50 0.00 1.00
PCA 0.84 (0.09) 0.77 (0.15) 0.75 (0.15) 0.50 0.00 1.00
SNR 0.50 (0.00) 0.08 (0.27) 0.92 (0.27) 0.50 0.00 1.00
t-test 0.50 (0.00) 0.08 (0.27) 0.92 (0.27) 0.50 0.00 1.00
ODP - - - - - -
cat - - - - - -

Sakellariou et al.

Sakellariou et al. BMC Bioinformatics 2012 13:270   doi:10.1186/1471-2105-13-270

Open Data