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Table 2 Performance evaluation under Study I (Setting 2), (G=5000, 500 DE gene) #
| Cut-off | Method | CDE | CCDE | CCEE | FNR | FPR | FDR | FNDR |
|---|---|---|---|---|---|---|---|---|
| γ 0 | I | 1086.5(22.5) | 476.3(4.4) | 3890.8(21.9) | 0.045(0.009) | 0.135(0.005) | 0.561(0.009) | 0.006(0.001) |
| (0.4) | II | 1388.1(25.7) | 499.7(0.5) | 3611.6(25.7) | 0.001(0.001) | 0.197(0.006) | 0.640(0.007) | 0.000(0.000) |
| γ 0 | I | 656.8(13.8) | 448.2(5.5) | 4291.4(13.1) | 0.104(0.011) | 0.046(0.003) | 0.317(0.014) | 0.012(0.001) |
| (0.6) | II | 749.3(15.0) | 496.0(1.8) | 4246.7(15.1) | 0.008(0.004) | 0.056(0.003) | 0.338(0.014) | 0.001(0.000) |
| FDR | I | 357.1(8.7) | 342.7(8.0) | 4485.6(3.9) | 0.315(0.016) | 0.003(0.001) | 0.040(0.011) | 0.034(0.002) |
| (0.05) | II | 480.7(10.5) | 458.7(7.7) | 4478.0(5.7) | 0.083(0.015) | 0.005(0.001) | 0.046(0.011) | 0.009(0.002) |
| SAM | 326.9(12.9) | 312.0(11.2) | 4485.1(4.5) | 0.376(0.022) | 0.003(0.001) | 0.045(0.013) | 0.040(0.002) | |
| LIMMA | 329.5(51.9) | 309.9(21.6) | 4480.4(31.8) | 0.380(0.043) | 0.004(0.007) | 0.053(0.045) | 0.041(0.004) | |
| EBA | 190.4(6.7) | 184.2(6.7) | 4493.7(1.9) | 0.632(0.013) | 0.001(0.000) | 0.033(0.010) | 0.066(0.001) |
