Extracting Structured Genotype Information from Free-Text HLA Reports Using a Rule-Based Approach.

Journal: Journal of Korean medical science
PMID: 32233158

Abstract

BACKGROUND: Human leukocyte antigen (HLA) typing is important for transplant patients to prevent a severe mismatch reaction, and the result can also support the diagnosis of various disease or prediction of drug side effects. However, such secondary applications of HLA typing results are limited because they are typically provided in free-text format or PDFs on electronic medical records. We here propose a method to convert HLA genotype information stored in an unstructured format into a reusable structured format by extracting serotype/allele information.

Authors

  • Kye Hwa Lee
    Center for Precision Medicine, Seoul National University Hospital, Seoul, Korea. geffa@snu.as.kr.
  • Hyo Jung Kim
    Division of Biomedical Informatics, Seoul National University Biomedical Informatics and Systems Biomedical Informatics Research Center, Seoul National University College of Medicine, Seoul, Korea.
  • Yi Jun Kim
    Center for Precision Medicine, Seoul National University Hospital, Seoul, Korea.
  • Ju Han Kim
    Department of Cardiovascular Medicine, Chonnam National University Hospital, Gwangju, Korea.
  • Eun Young Song
    Department of Laboratory Medicine, Seoul National University College of Medicine, Seoul, Korea. eysong1@snu.ac.kr.

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