BioGenEL

This repository is for our NAACL 2022 work:

Generative Biomedical Entity Linking via Knowledge Base-Guided Pre-training and Synonyms-Aware Fine-tuning

Citation

If interested, please cite:

@inproceedings{yuan-etal-2022-generative,
    title = "Generative Biomedical Entity Linking via Knowledge Base-Guided Pre-training and Synonyms-Aware Fine-tuning",
    author = "Yuan, Hongyi  and
      Yuan, Zheng  and
      Yu, Sheng",
    booktitle = "Proceedings of the 2022 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies",
    month = jul,
    year = "2022",
    address = "Seattle, United States",
    publisher = "Association for Computational Linguistics",
    url = "https://aclanthology.org/2022.naacl-main.296",
    doi = "10.18653/v1/2022.naacl-main.296",
    pages = "4038--4048",
}

Some of our code are modified from facebook's GENRE work.