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CodeMapper: semiautomatic coding of case definitions. A contribution from the ADVANCE project.

Benedikt F H Becker1, Paul Avillach1,2, Silvana Romio1,3

  • 1Department of Medical Informatics, Erasmus University Medical Center, Rotterdam, The Netherlands.

Pharmacoepidemiology and Drug Safety
|June 29, 2017
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Summary

CodeMapper effectively maps medical case definitions to various coding vocabularies by expanding concepts, improving accuracy for drug and vaccine effect assessments across European healthcare databases.

Keywords:
UMLSconcept identificationdatabase extractionmultiple medical vocabulariessemantic operations

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Area of Science:

  • Health Informatics
  • Pharmacovigilance
  • Medical Terminology

Background:

  • Harmonizing healthcare data across European Union countries is challenging due to diverse coding vocabularies.
  • Assessing drug and vaccine effects requires combining information from multiple healthcare databases.

Purpose of the Study:

  • To present CodeMapper, a web application for mapping case definitions to different coding vocabularies.
  • To ensure a transparent record of the complete mapping process.

Main Methods:

  • CodeMapper utilizes the Unified Medical Language System Metathesaurus.
  • The process involves automatic concept identification, user revision, and projection to target vocabularies.
  • Evaluation compared automatically generated codes with manually created reference codes.

Main Results:

  • Automated concept identification alone yielded low sensitivity (0.246) and PPV (0.420).
  • Concept expansion significantly improved performance, increasing sensitivity to 0.953 and PPV to 0.616.

Conclusions:

  • Automatic concept identification is insufficient for accurate code reproduction.
  • CodeMapper's concept expansion offers an effective, efficient, and transparent solution for mapping case definitions to codes.