Table 5.
Performance comparison of different PPI methods using Shen’s dataset a in the 10 CV test.
| Method | Sn (%) | Sp (%) | ACC (%) | MCC |
|---|---|---|---|---|
| LEWP710101 | 97.3 ± 0.04 | 99.2 ± 0.04 | 98.3 ± 0.00 | 0.966 ± 0.0006 |
| QIAN880138 | 97.3 ± 0.10 | 99.1 ± 0.10 | 98.3 ± 0.10 | 0.966 ± 0.002 |
| NADH010104 | 97.2 ± 0.07 | 99.2 ± 0.04 | 98.3 ± 0.05 | 0.965 ± 0.0007 |
| NAGK730103 | 97.2 ± 0.06 | 99.2 ± 0.04 | 98.2 ± 0.06 | 0.965 ± 0.0004 |
| AURR980116 | 97.3 ± 0.04 | 99.1 ± 0.06 | 98.2 ± 0.06 | 0.965 ± 0.0006 |
| Hf-DFPCA | 97.6 ± 0.20 | 99.1 ± 0.10 | 98.4 ± 0.10 | 0.967 ± 0.002 |
| Vf-DFPCA | 97.5 ± 0.10 | 98.9 ± 1.00 | 98.3 ± 0.80 | 0.965 ± 0.007 |
| Pf-DFPCA | 96.9 ± 0.10 | 99.5 ± 0.60 | 98.2 ± 0.60 | 0.964 ± 0.004 |
| Zf-DFPCA | 97.9 ± 0.90 | 96.0 ± 0.20 | 96.9 ± 1.10 | 0.939 ± 0.002 |
| LDA-RF b | 94.2 ± 0.40 | 98.0 ± 0.30 | 96.4 ± 0.30 | 0.928 ± 0.006 |
| LDA-RoF b | 93.7± 0.50 | 97.6 ± 0.60 | 95.7 ± 0.40 | 0.918 ± 0.007 |
| LDA-SVM b | 89.7 ± 1.30 | 91.5 ± 1.10 | 90.7 ± 0.90 | 0.813 ± 0.018 |
| AC-RF b | 94.0 ± 0.60 | 96.6 ± 0.40 | 95.5 ± 0.30 | 0.914 ± 0.007 |
| AC-RoF b | 93.3 ± 0.70 | 97.1 ± 0.70 | 95.1 ± 0.60 | 0.910 ± 0.009 |
| AC-SVM b | 94.0 ± 0.60 | 84.9 ± 1.70 | 89.3 ± 0.80 | 0.792 ± 0.014 |
| PseAAC-RF b | 94.1 ± 0.90 | 96.9 ± 0.30 | 95.6 ± 0.40 | 0.912 ± 0.007 |
| PseAAC-RoF b | 93.6 ± 0.90 | 96.7 ± 0.40 | 95.3 ± 0.50 | 0.907 ± 0.009 |
| PseAAC-SVM b | 89.9 ± 0.70 | 92.0 ± 0.40 | 91.2 ± 0.4 | 0.821 ± 0.006 |
a
Shen’s dataset contains two subdatasets, C and D, which are available at http://www.csbio.sjtu.edu.cn/bioinf/LR_PPI/Data.htm;