Extracting Angina Symptoms from Clinical Notes Using Pre-Trained Transformer Architectures.

Journal: AMIA ... Annual Symposium proceedings. AMIA Symposium
PMID: 33936414

Abstract

Anginal symptoms can connote increased cardiac risk and a need for change in cardiovascular management. In this study, a pre-trained transformer architecture was used to automatically detect and characterize anginal symptoms from within the history of present illness sections of 459 primary care physician notes. Consecutive patients referred for cardiac testing were included. Notes were annotated for positive and negative mentions of chest pain and shortness of breath characterization. The results demonstrate high sensitivity and specificity for the detection of chest pain or discomfort, substernal chest pain, shortness of breath, and dyspnea on exertion. Model performance extracting factors related to provocation and palliation of chest pain were limited by small sample size. Overall, this study shows that pre-trained transformer architectures have promise in automating the extraction of anginal symptoms from clinical texts.

Authors

  • Aaron S Eisman
    Center for Biomedical Informatics, Brown University, Providence RI.
  • Nishant R Shah
    Division of Cardiology, Department of Medicine, Brown University Alpert Medical School, Providence, RI, USA.
  • Carsten Eickhoff
    Department of Computer Science, ETH Zurich, Zurich, Switzerland; Center for Biomedical Informatics, Brown University, Providence, RI, USA.
  • George Zerveas
    Center for Biomedical Informatics, Brown University, Providence RI.
  • Elizabeth S Chen
    Center for Clinical & Translational Science, University of Vermont, Burlington, VT; Department of Medicine, University of Vermont, Burlington, VT.
  • Wen-Chih Wu
    Veterans Affairs Medical Center, Providence, RI; Brown University, Providence, RI.
  • Indra Neil Sarkar
    Center for Clinical & Translational Science, University of Vermont, Burlington, VT; Department of Microbiology & Molecular Genetics, University of Vermont, Burlington, VT.

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