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The Acquisition of Structured Clinical Data from a Document-Based Electronic Medical Record System
Toshihiro Takeda1, Dongyao Zhang1, Shoya Wada1
1Department of Medical Informatics, Osaka University Graduate School of Medicine, Suita, Japan.
Studies in Health Technology and Informatics
|August 24, 2019
Summary
This study details a method for extracting clinical data from scanned Portable Document Format (PDF) files. High accuracy was achieved even with scanned documents, improving data retrieval for clinical studies.
Area of Science:
- Health Informatics
- Data Management
Background:
- Hospitals store clinical records as Portable Document Formats (PDFs).
- Document profile XML files accompany PDFs, detailing important clinical study information.
- Clinical data not in the data warehouse (DWH) requires extraction from PDFs.
Purpose of the Study:
- To describe a method for extracting clinical data from PDF documents.
- To assess the accuracy of data extraction from scanned PDFs.
Main Methods:
- Utilizing document profile XML files to identify important clinical data.
- Developing a process for data extraction directly from PDF files.
- Testing the extraction accuracy on scanned PDF documents.
Main Results:
- Clinical data can be extracted from PDF documents.
- High accuracy in data extraction was achieved, even from scanned PDFs.
Conclusions:
- The described method enables accurate retrieval of clinical data from PDFs.
- This approach enhances the usability of archived clinical records for research purposes.
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