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

AMIA Annu Symp Proc. 2021 Jan 25;2020:412-421. eCollection 2020.


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.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Angina Pectoris / diagnosis*
  • Chest Pain / diagnosis
  • Chest Pain / etiology*
  • Computer Systems
  • Data Collection*
  • Documentation
  • Electronic Health Records*
  • Humans
  • Male
  • Middle Aged
  • Natural Language Processing*
  • Physicians, Primary Care*
  • Primary Health Care