Table 3.
Performance comparison between testset-homologous and testset-unknown under various test set partitioning conditions
| Method | Trainset | Testset | Random | BFS | DFS |
|---|---|---|---|---|---|
| GNN-PPI | SHS27k-Train | SHS27k-Test | 87.11 | 62.10 | 71.19 |
| STRING | 66.85 | 66.39 | 67.43 | ||
| SHS148k-Train | SHS148k-Test | 91.68 | 73.88 | 82.54 | |
| STRING | 73.12 | 67.43 | 70.64 | ||
| DL-PPI | SHS27k-Train | SHS27k-Test | 89.29 | 66.63 | 81.13 |
| STRING | 68.48 | 66.06 | 81.01 | ||
| SHS148k-Train | SHS148k-Test | 91.69 | 75.61 | 83.04 | |
| STRING | 66.66 | 69.21 | 72.36 |
The numbers in bold indicate the best performance
The Micro-F1 evaluation metric is used here