Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking Datasets
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| Authors | Yifan Peng, Shankai Yan, Zhiyong Lu |
| Journal/Conference Name | Database : the journal of biological databases and curation |
| Paper Category | Agricultural and Biological Sciences |
| Paper Abstract | Inspired by the success of the General Language Understanding Evaluation benchmark, we introduce the Biomedical Language Understanding Evaluation (BLUE) benchmark to facilitate research in the development of pre-training language representations in the biomedicine domain. The benchmark consists of five tasks with ten datasets that cover both biomedical and clinical texts with different dataset sizes and difficulties. We also evaluate several baselines based on BERT and ELMo and find that the BERT model pre-trained on PubMed abstracts and MIMIC-III clinical notes achieves the best results. |
| Date of publication | 2019 |
| Code Programming Language | Python |
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