EMR-Based Phenotyping of Ischemic Stroke Using Supervised Machine Learning and Text Mining Techniques

Sheng Feng Sung, Chia Yi Lin, Ya Han Hu

Research output: Contribution to journalArticlepeer-review

6 Scopus citations


Ischemic stroke is a major cause of death and disability in adulthood worldwide. Because it has highly heterogeneous phenotypes, phenotyping of ischemic stroke is an essential task for medical research and clinical prognostication. However, this task is not a trivial one when the study population is large. Phenotyping of ischemic stroke depends primarily on manual annotation of medical records in previous studies. This article evaluated various strategies for automated phenotyping of ischemic stroke into the four subtypes of the Oxfordshire Community Stroke Project classification based on structured and unstructured data from electronical medical records (EMRs). A total of 4640 adult patients who were hospitalized for acute ischemic stroke in a teaching hospital were included. In addition to the structured items in the National Institutes of Health Stroke Scale, unstructured clinical narratives were preprocessed using MetaMap to identify medical concepts, which were then encoded into feature vectors. Various supervised machine learning algorithms were used to build classifiers. The study results indicate that textual information from EMRs could facilitate phenotyping of ischemic stroke when this information was combined with structured information. Furthermore, decomposition of this multi-class problem into binary classification tasks followed by aggregation of classification results could improve the performance.

Original languageEnglish
Article number9017987
Pages (from-to)2922-2931
Number of pages10
JournalIEEE Journal of Biomedical and Health Informatics
Issue number10
StatePublished - Oct 2020


  • Classification algorithm
  • clinical diagnosis
  • electronic medical records
  • machine learning
  • natural language processing
  • text mining


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