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Peer-Reviewed Publication
Proc Conf Empir Methods Nat Lang Process2023;202314462-14478.December 1, 2023Journal Article

A Comprehensive Evaluation of Biomedical Entity Linking Models.

David Kartchner1,2, Jennifer Deng2, Shubham Lohiya2, Tejasri Kopparthi2, Prasanth Bathala2, Daniel Domingo-Fernández1, Cassie S Mitchell2
1Enveda Biosciences.
2Georgia Institute of Technology.

Abstract

Biomedical entity linking (BioEL) is the process of connecting entities referenced in documents to entries in biomedical databases such as the Unified Medical Language System (UMLS) or Medical Subject Headings (MeSH). The study objective was to comprehensively evaluate nine recent state-of-the-art biomedical entity linking models under a unified framework. We compare these models along axes of (1)…

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