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BERN2: an advanced neural biomedical named entity recognition and normalization tool

2022-01-06 14:53:30
Mujeen Sung, Minbyul Jeong, Yonghwa Choi, Donghyeon Kim, Jinhyuk Lee, Jaewoo Kang
arXiv_CL
             
Abstract

In biomedical natural language processing, named entity recognition (NER) and named entity normalization (NEN) are key tasks that enable the automatic extraction of biomedical entities (e.g., diseases and chemicals) from the ever-growing biomedical literature. In this paper, we present BERN2 (Advanced Biomedical Entity Recognition and Normalization), a tool that improves the previous neural network-based NER tool (Kim et al., 2019) by employing a multi-task NER model and neural network-based NEN models to achieve much faster and more accurate inference. We hope that our tool can help annotate large-scale biomedical texts more accurately for various tasks such as biomedical knowledge graph construction.

Abstract (translated)

URL

https://arxiv.org/abs/2201.02080

PDF

https://arxiv.org/pdf/2201.02080.pdf

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