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# BioBERT-NLI | ||
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This is the model [BioBERT](https://github.com/dmis-lab/biobert) [1] fine-tuned on the [SNLI](https://nlp.stanford.edu/projects/snli/) and the [MultiNLI](https://www.nyu.edu/projects/bowman/multinli/) datasets using the [`sentence-transformers` library](https://github.com/UKPLab/sentence-transformers/) to produce universal sentence embeddings [2]. | ||
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The model uses the original BERT wordpiece vocabulary and was trained using the **average pooling strategy** and a **softmax loss**. | ||
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**Base model**: `monologg/biobert_v1.1_pubmed` from HuggingFace's `AutoModel`. | ||
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**Training time**: ~6 hours on the NVIDIA Tesla P100 GPU provided in Kaggle Notebooks. | ||
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**Parameters**: | ||
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| Parameter | Value | | ||
|------------------|-------| | ||
| Batch size | 64 | | ||
| Training steps | 30000 | | ||
| Warmup steps | 1450 | | ||
| Lowercasing | False | | ||
| Max. Seq. Length | 128 | | ||
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**Performances**: The performance was evaluated on the test portion of the [STS dataset](http://ixa2.si.ehu.es/stswiki/index.php/STSbenchmark) using Spearman rank correlation and compared to the performances of a general BERT base model obtained with the same procedure to verify their similarity. | ||
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| Model | Score | | ||
|-------------------------------|-------------| | ||
| `biobert-nli` (this) | 73.40 | | ||
| `gsarti/scibert-nli` | 74.50 | | ||
| `bert-base-nli-mean-tokens`[3]| 77.12 | | ||
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An example usage for similarity-based scientific paper retrieval is provided in the [Covid Papers Browser](https://github.com/gsarti/covid-papers-browser) repository. | ||
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**References:** | ||
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[1] J. Lee et al, [BioBERT: a pre-trained biomedical language representation model for biomedical text mining](https://academic.oup.com/bioinformatics/article/36/4/1234/5566506) | ||
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[2] A. Conneau et al., [Supervised Learning of Universal Sentence Representations from Natural Language Inference Data](https://www.aclweb.org/anthology/D17-1070/) | ||
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[3] N. Reimers et I. Gurevych, [Sentence-BERT: Sentence Embeddings using Siamese BERT-Networks](https://www.aclweb.org/anthology/D19-1410/) |