Table 2.
Comparison of Methods' Performance on Different Datasets
| Test Set | Method | R | RMSE |
|---|---|---|---|
| S487 | MutaBind2 | 0.41 | 1.25 |
| MutaBind | 0.29∗∗ | 1.63 | |
| BeAtMuSiC | 0.35 | 1.28 | |
| FoldX | 0.34∗ | 1.53 | |
| iSEE | 0.25∗∗ | 1.32 | |
| S8338 | MutaBind2 CV4 | 0.74 | 1.37 |
| MutaBind2 CV5 | 0.66 | 1.53 | |
| mCSM-PPI2 CV4 | 0.75 | 1.30 | |
| mCSM-PPI2 CV5 | 0.67 | 1.39 |
∗ and ∗∗ indicate statistically significant difference between MutaBind2 and other methods in terms of R with p value < 0.05 and p value < 0.01, respectively, calculated on test set S487 (implemented in R package cocor).
R, Pearson correlation coefficient; RMSE, root-mean-square error.
R and RMSE values were taken from the mCSM-PPI2 article (Rodrigues et al., 2019). For testing on S487 set, MutaBind2 was retrained after removing S487 from the training dataset. For testing on S8338 set, MutaBind2 was retrained on S8338. See also Table S6.