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Comparison metrics of biomedically related pre-trained BERT-based models
| Model | Overall token-level precision | Overall entity-level precision |
|---|---|---|
| BioBERT large cased v1.1 | 0.834 | 0.720 |
| BioBERT base cased v1.2 | 0.825 | 0.698 |
| PubMedBERT base | 0.824 | 0.713 |
| PubMedBERT + PMC base | 0.824 | 0.715 |
| BlueBERT base | 0.829 | 0.722 |
| BlueBERT large | 0.818 | 0.690 |
The highest scores in each category are bolded. The second highest are underlined
