A Semantically Enriched Dataset based on Biomedical NER for the COVID19 Open Research Dataset Challenge

Hermann Kroll; Jan Pirklbauer; Johannes Ruthmann; Wolf-Tilo Balke

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A Semantically Enriched Dataset based on Biomedical NER for the COVID19 Open Research Dataset Challenge

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arxiv 2005.08823 v1 pith:YWP3NUHV submitted 2020-05-18 cs.DL

Hermann Kroll , Jan Pirklbauer , Johannes Ruthmann , Wolf-Tilo Balke This is my paper · ORCID

classification cs.DL

keywords researchchallengecovid-19datasetentitytoolsinformationopen

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Research into COVID-19 is a big challenge and highly relevant at the moment. New tools are required to assist medical experts in their research with relevant and valuable information. The COVID-19 Open Research Dataset Challenge (CORD-19) is a "call to action" for computer scientists to develop these innovative tools. Many of these applications are empowered by entity information, i. e. knowing which entities are used within a sentence. For this paper, we have developed a pipeline upon the latest Named Entity Recognition tools for Chemicals, Diseases, Genes and Species. We apply our pipeline to the COVID-19 research challenge and share the resulting entity mentions with the community.

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