Table 3 Results under 5CV of different feature combinations considered on RPI1807 and NPInter v2.0
Dataset | Combinations of features | ACC (%) | TPR (%) | TNR (%) | PPV (%) | F1 (%) | MCC (%) | AUC (%) |
|---|---|---|---|---|---|---|---|---|
RPI1807 | Sequence | 92.1 ± 1.3 | 94.5 ± 2.7 | 85.1 ± 2.9 | 94.9 ± 0.8 | 94.7 ± 0.9 | 79.5 ± 2.9 | 96.2 ± 0.8 |
Secondary structure | 92.8 ± 1.2 | 96.6 ± 1.9 | 81.5 ± 6.6 | 94.0 ± 2.1 | 95.2 ± 0.7 | 80.7 ± 3.5 | 96.1 ± 1.1 | |
Tertiary structure | 72.9 ± 9.6 | 85.7 ± 21.7 | 28.7 ± 28.7 | 82.9 ± 6.9 | 79.7 ± 12.7 | 26.9 ± 21.5 | 81.6 ± 8.7 | |
Sequence + secondary structure | 93.8 ± 0.6 | 96.6 ± 1.2 | 85.5 ± 2.5 | 95.2 ± 0.8 | 95.9 ± 0.4 | 83.5 ± 1.5 | 96.5 ± 0.8 | |
Sequence + tertiary structure | 92.6 ± 1.6 | 95.1 ± 2.2 | 85.1 ± 2.9 | 95.0 ± 0.9 | 95.0 ± 1.1 | 80.5 ± 3.9 | 96.3 ± 0.8 | |
Secondary structure + tertiary structure | 92.4 ± 0.4 | 96.5 ± 1.5 | 80.6 ± 5.6 | 93.7 ± 1.6 | 95.0 ± 0.2 | 79.7 ± 1.3 | 96.2 ± 0.9 | |
All features | 94.3 ± 0.2 | 97.4 ± 1.0 | 85.1 ± 1.9 | 95.1 ± 0.6 | 96.2 ± 0.2 | 84.7 ± 0.7 | 96.7 ± 0.8 | |
NPInter v2.0 | Sequence | 87.7 ± 0.8 | 89.7 ± 1.1 | 85.7 ± 2.4 | 86.3 ± 1.9 | 87.9 ± 0.7 | 75.5 ± 1.6 | 94.6 ± 0.3 |
Secondary structure | 78.8 ± 1.4 | 87.5 ± 1.4 | 70.1 ± 2.4 | 74.6 ± 1.6 | 80.5 ± 1.2 | 58.5 ± 2.7 | 88.1 ± 1.0 | |
Tertiary structure | 54.7 ± 3.8 | 68.1 ± 27.0 | 41.4 ± 33.6 | 58.7 ± 8.7 | 56.3 ± 10.6 | 10.9 ± 8.7 | 59.9 ± 2.7 | |
Sequence + secondary structure | 89.1 ± 0.9 | 91.2 ± 1.1 | 86.9 ± 1.5 | 87.5 ± 1.3 | 89.3 ± 0.8 | 78.3 ± 1.7 | 95.4 ± 0.3 | |
Sequence + tertiary structure | 88.9 ± 0.8 | 91.1 ± 1.1 | 86.8 ± 1.3 | 87.3 ± 1.1 | 89.2 ± 0.7 | 77.9 ± 1.5 | 95.2 ± 0.5 | |
Secondary structure + tertiary structure | 83.5 ± 1.0 | 88.6 ± 1.5 | 78.5 ± 2.6 | 80.5 ± 1.8 | 84.3 ± 0.7 | 67.5 ± 1.9 | 92.0 ± 0.4 | |
All features | 90.0 ± 0.7 | 92.2 ± 1.1 | 87.6 ± 0.9 | 88.2 ± 0.8 | 90.2 ± 0.7 | 80.0 ± 1.4 | 96.2 ± 0.3 |