Unified Medical Language System resources improve sieve-based generation and Bidirectional Encoder Representations from Transformers (BERT)-based ranking for concept normalization.

Journal: Journal of the American Medical Informatics Association : JAMIA
PMID: 32719838

Abstract

OBJECTIVE: Concept normalization, the task of linking phrases in text to concepts in an ontology, is useful for many downstream tasks including relation extraction, information retrieval, etc. We present a generate-and-rank concept normalization system based on our participation in the 2019 National NLP Clinical Challenges Shared Task Track 3 Concept Normalization.

Authors

  • Dongfang Xu
  • Manoj Gopale
    Department of Electrical and Computer Engineering, University of Arizona, Tucson, Arizona, USA.
  • JiaCheng Zhang
  • Kris Brown
    National Center for Computational Sciences, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
  • Edmon Begoli
    University of Tennessee, Knoxville, TN, USA; Oak Ridge National Laboratory, Knoxville, TN, USA.
  • Steven Bethard
    Department of Computer and Information Science, University of Alabama at Birmingham, Birmingham, Alabama, USA, 35294.

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