Biomedical Entity Linking on COMETA
82.8Acc@1GenBioEL + ANGEL_PT+FT
Evaluation Results
| Method | Links | ||
|---|---|---|---|
| GenBioEL + ANGEL_PT+FTBackbone=GenBioEL, Protocol=pre-training and fine-tuning2024.08 | 82.8 | — | |
| Prompt-BioELModel Category=Similarity-based BioEL & Re-ranking2024.08 | 82.7 | — | |
| GenBioEL + ANGEL_FTBackbone=GenBioEL, Protocol=fine-tuning2024.08 | 82.4 | — | |
| BioBART + ANGEL_FTBackbone=BioBART, Protocol=fine-tuning2024.08 | 82.2 | — | |
| BioBARTSource=reported, Model Category=Generative BioEL2024.08 | 81.8 | — | |
| GenBioELSource=reported, Model Category=Generative BioEL2024.08 | 81.4 | — | |
| BART + ANGEL_FTBackbone=BART, Protocol=fine-tuning2024.08 | 81.3 | — | |
| BioBARTSource=reproduced, Model Category=Generative BioEL2024.08 | 81.3 | — | |
| GenBioELSource=reproduced, Model Category=Generative BioEL2024.08 | 80.9 | — | |
| BARTSource=reported, Model Category=Generative BioEL2024.08 | 80.7 | — | |
| BARTSource=reproduced, Model Category=Generative BioEL2024.08 | 80.4 | — | |
| ResCNNModel Category=Similarity-based BioEL & Re-ranking2024.08 | 80.1 | — | |
| KRISSBERTModel Category=Similarity-based BioEL & Re-ranking2024.08 | 80.1 | — | |
| SapBERTModel Category=Similarity-based BioEL & Re-ranking2024.08 | 75.1 | — | |
| BioSYNModel Category=Similarity-based BioEL & Re-ranking2024.08 | 71.3 | — | |
| SapBERTBackbone=SapBERT, Mirror-tuning=false2021.04 | 65.9 | 77.9 | |
| Mirror-BERTBackbone=PubMedBERT, Mirror-tuning=true2021.04 | 60.3 | 71.3 | |
| Mirror-BERTBackbone=BERT, Mirror-tuning=true2021.04 | 54.7 | 64.7 | |
| PubMedBERTBackbone=PubMedBERT, Mirror-tuning=false2021.04 | 46.8 | 53.2 | |
| BERTBackbone=BERT, Mirror-tuning=false2021.04 | 40.4 | 47.7 |