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BENT-PubMedBERT-NER-Organism
pruas/BENT-PubMedBERT-NER-Organism
BENT-PubMedBERT-NER-Organism is a token classification model from pruas. Use it when you need labels on individual words, such as names. It is set up for transformers. The card lists the license as apache-2.0.
Named Entity Recognition (NER) model to recognize organism entities.
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Repo size
1.7 GB
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.pt871 MB · 67%
At a glance
- Task
- Token Classification
- Library
- transformers
- License
- apache-2.0
- Model type
- bert
- Access
- Public
- Created
- Jan 14, 2023
- Updated
- Mar 2, 2024
- SHA
- 50b35542
Try a prompt
Model card
From the Hugging Face model README
Named Entity Recognition (NER) model to recognize organism entities.
Please cite our work:
@article{NILNKER2022,
title = {NILINKER: Attention-based approach to NIL Entity Linking},
journal = {Journal of Biomedical Informatics},
volume = {132},
pages = {104137},
year = {2022},
issn = {1532-0464},
doi = {https://doi.org/10.1016/j.jbi.2022.104137},
url = {https://www.sciencedirect.com/science/article/pii/S1532046422001526},
author = {Pedro Ruas and Francisco M. Couto},
}
PubMedBERT fine-tuned on the following datasets:
- CellFinder: entity type "species"
- CRAFT: entity type "NCBITaxon"
- MLEE:entity type "organism"
- LINNAEUS (train and dev sets):
- Species-800
- BioNLP11ID: entity type "Organism"
- BioNLP13CG: entity types "Organism", "Organism subdivision"
- miRNA-Test-Corpus: entity type "species"
- Mantra:entity type "DISO"
- Task
- Token Classification
- Library
- transformers
- Type
- bert
- License
- apache-2.0
- Languages
- en
- Created
- Jan 14, 2023
- Updated
- Mar 2, 2024