Protein-Protein Interaction on Bernett
57.3ROC-AUCMasked-pos (run 2)
Evaluation Results
| Method | Links | |
|---|---|---|
| Masked-pos (run 2)Backbone=ESM2-150M2026.05 | 57.3 | |
| MLM-onlyBackbone=AMPLIFY-120M2026.05 | 57.2 | |
| Masked-pos (run 1)Backbone=ESM2-150M2026.05 | 56.6 | |
| MLM-onlyBackbone=ESM2-35M2026.05 | 56.5 | |
| BaselineBackbone=ESM2-150M2026.05 | 56.5 | |
| MLM-onlyBackbone=ESM2-150M2026.05 | 56.5 | |
| All-pos MLM+JEPABackbone=ESM2-150M2026.05 | 56.1 | |
| BaselineBackbone=AMPLIFY-120M2026.05 | 56.1 | |
| All-pos MLM+JEPABackbone=AMPLIFY-120M2026.05 | 55.9 | |
| Masked-posBackbone=AMPLIFY-120M2026.05 | 55.9 | |
| Masked-pos (SGDm)Backbone=ESM2-35M2026.05 | 55.8 | |
| BaselineBackbone=ESM2-35M2026.05 | 55.5 | |
| Masked-posBackbone=ProteinBERT2-35M2026.05 | 55.4 | |
| All-pos MLM+JEPABackbone=ESM2-35M2026.05 | 55.2 | |
| Masked-pos (AdamW)Backbone=ESM2-35M2026.05 | 55.1 | |
| Masked-posBackbone=Rand-Init-35M2026.05 | 54.6 | |
| MLM+JEPA @90kBackbone=Not specified2026.05 | 54.5 | |
| ESM2-150M rand-init MLM-onlyBackbone=Not specified2026.05 | 54.5 | |
| All-pos MLM+JEPABackbone=ProteinBERT2-35M2026.05 | 53.9 | |
| JEPA-onlyBackbone=ESM2-150M2026.05 | 53.3 | |
| JEPA-only @90kBackbone=Not specified2026.05 | 53.2 | |
| ProteinBERT2-150M masked-posBackbone=Not specified2026.05 | 53.1 | |
| JEPA-onlyBackbone=ESM2-35M2026.05 | 52.9 | |
| MLM-onlyBackbone=Rand-Init-35M2026.05 | 52.7 | |
| MLM-onlyBackbone=ProteinBERT2-35M2026.05 | 52.7 | |
| BaselineBackbone=Rand-Init-35M2026.05 | 52.6 | |
| BaselineBackbone=ProteinBERT2-35M2026.05 | 52.2 | |
| All-pos MLM+JEPABackbone=Rand-Init-35M2026.05 | 52.1 | |
| JEPA-onlyBackbone=ProteinBERT2-35M2026.05 | 52.1 | |
| JEPA-onlyBackbone=AMPLIFY-120M2026.05 | 52 | |
| JEPA-onlyBackbone=Rand-Init-35M2026.05 | 51.4 |