| Method | Classifier | Database | Performance (ACC, AUC) |
| LPI-CNNCP | CNN | RPI1446 | 0.866 ± 0.2、/ |
| NPI-GNN | Graph SAGE | NPInter2.0 | 0.933、/ |
| Capsule-LPI | Capsule network | NPInter2.0 | 0.917 ± 0.86、0.953 ± 0.41 |
| LPIGAC | GAE | NPInter2.0 | /、0.936 |