BERN2

BERN2

An Advanced Neural Biomedical Named Entity Recognition and Normalization Tool (Sung et al., 2022)
DMIS Lab at Korea University

Features of BERN2

  • Recognition of 9 biomedical entity types along with normalized IDs
    (Gene, Disease, Chemical, Species, Mutation, Cell Line, Cell Type, DNA, and RNA)
  • Plain text or PMID as an input and annotated results in real time
  • RESTful API or local installation (documentation)
  • Pre-processed PubMed annotations (annotations)
  • We set the API limit of 300 requests per 100 seconds per user.
    For bulk requests, we highly recommend you to use the local installation.
If you use BERN2 in your work, please cite our paper. 
@article{sung2022bern2,
    title={BERN2: an advanced neural biomedical namedentity recognition and normalization tool}, 
    author={Sung, Mujeen and Jeong, Minbyul and Choi, Yonghwa and Kim, Donghyeon and Lee, Jinhyuk and Kang, Jaewoo},
    year={2022},
    eprint={2201.02080},
    archivePrefix={arXiv},
    primaryClass={cs.CL}
}

If you have any questions or have found a bug, please post an issue on GitHub or contact mujeensung@korea.ac.kr or minbyuljeong@korea.ac.kr