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A Metadata Extraction Approach for Clinical Case Reports to Enable Advanced Understanding of Biomedical Concepts

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Breaking Barriers for Interoperability: A Reference Implementation of CSV-FHIR Transformation Using Open-Source

Samer Alkarkoukly^1,2, Md Mostafa Kamal^1,2, Oya Beyan^1,3

¹Institute for Biomedical Informatics, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany.

Studies in Health Technology and Informatics

|May 19, 2023

Summary

This summary is machine-generated.

Transforming health data to FHIR is hard. This study shows how to use Mirth Connect, an open-source tool, to convert CSV data into FHIR resources easily and affordably.

Keywords:

CSV Data Transformation FHIR Fast Health Interoperability Resources Interoperability Mirth Connect open-source

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Area of Science:

Health Informatics
Data Interoperability
Open-Source Solutions

Background:

Fast Healthcare Interoperability Resources (FHIR) is a standard for medical data exchange.
Transforming data into FHIR format typically requires advanced technical expertise and infrastructure.
There is a need for accessible, low-cost methods for FHIR data transformation.

Purpose of the Study:

To present a low-cost, user-friendly reference implementation for transforming data into FHIR resources.
To demonstrate the use of Mirth Connect, an open-source integration engine, for this transformation.
To provide a replicable solution for healthcare providers without requiring advanced technical skills.

Main Methods:

Developed a reference implementation using Mirth Connect to convert data from Comma Separated Values (CSV) format to FHIR resources.
Focused on a no-code/low-code approach, minimizing the need for programming skills.
Ensured the solution is testable for quality and performance.

Main Results:

Successfully created and tested a reference implementation for CSV to FHIR data transformation using Mirth Connect.
The implementation requires no advanced technical resources or programming knowledge.
The solution is validated for both quality and performance.

Conclusions:

The developed Mirth Connect-based implementation offers a practical and affordable solution for transforming health data into FHIR.
This approach empowers healthcare providers to manage FHIR data transformation independently.
The project's components are publicly available on GitHub to promote adoption and further development.