Biomedical Named Entity Recognition with Multilingual BERT

descriptionPublicationkeyboard_double_arrow_right Article , Conference object 01 Jan 2019Publisher:Association for Computational Linguistics (ACL)Journal:Proceedings of The 5th Workshop on BioNLP Open Shared Tasks

Authors: Hakala Kai; Pyysalo Sampo;

doi: 10.18653/v1/d19-5709

Biomedical Named Entity Recognition with Multilingual BERT

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Abstract

We present the approach of the Turku NLP group to the PharmaCoNER task on Spanish biomedical named entity recognition. We apply a CRF-based baseline approach and multilingual BERT to the task, achieving an F-score of 88% on the development data and 87% on the test set with BERT. Our approach reflects a straightforward application of a state-of-the-art multilingual model that is not specifically tailored to either the language nor the application domain. The source code is available at: https://github.com/chaanim/pharmaconer

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