Development of interoperable, domain-specific extensions for the German Corona Consensus (GECCO) COVID-19 research dataset using an interdisciplinary, consensus-based workflow

  • Background: The COVID-19 pandemic has spurred large-scale, inter-institutional research efforts. To enable these efforts, the German Corona Consensus (GECCO) dataset has been developed previously as a harmonized, interoperable collection of the most relevant data elements for COVID-19-related patient research. As GECCO has been developed as a compact core dataset across all medical fields, the focused research within particular medical domains demanded the definition of extension modules that include those data elements that are most relevant to the research performed in these individual medical specialties. Main body: We created GECCO extension modules for the immunization, pediatrics, and cardiology domains with respect to the pandemic requests. The data elements included in each of these modules were selected in a consensus-based process by working groups of medical experts from the respective specialty to ensure that the contents are aligned with the research needs of the specialty. The selected data elements were mapped to international standardized vocabularies and data exchange specifications were created using HL7 FHIR profiles on the appropriate resources. All steps were performed in close interdisciplinary collaboration between medical domain experts, medical information scientists and FHIR developers. The profiles and vocabulary mappings were syntactically and semantically validated in a two-stage process. In that way, we defined dataset specifications for a total number of 23 (immunization), 59 (pediatrics), and 50 (cardiology) data elements that augment the GECCO core dataset. We created and published implementation guides and example implementations as well as dataset annotations for each extension module. Conclusions: We here present extension modules for the GECCO core dataset that contain data elements most relevant to COVID-19-related patient research in immunization, pediatrics and cardiology. These extension modules were defined in an interdisciplinary, iterative, consensus-based approach that may serve as a blueprint for the development of further dataset definitions and GECCO extension modules. The here developed GECCO extension modules provide a standardized and harmonized definition of specialty-related datasets that can help to enable inter-institutional and cross-country COVID-19 research in these specialties.

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Author:Gregor LichtnerORCiDGND, Thomas HaeseORCiD, Sally BroseORCiD, Larissa Röhrig, Liudmila LysyakovaORCiDGND, Stefanie RudolphORCiDGND, Maria Uebe, Julian SassORCiD, Alexander BartschkeORCiD, David Hillus, Florian Michael KurthORCiDGND, Leif Erik SanderORCiDGND, Falk Christian EckartORCiDGND, Nicole Marina TöpfnerORCiDGND, Reinhard BernerORCiDGND, Anna FreyORCiDGND, Marcus DörrORCiDGND, Jörg Janne VehreschildORCiDGND, Christof von KalleORCiDGND, Sylvia ThunORCiDGND
Parent Title (German):medRxiv
Document Type:Preprint
Date of Publication (online):2023/02/06
Date of first Publication:2023/02/06
Publishing Institution:Universitätsbibliothek Johann Christian Senckenberg
Release Date:2023/08/08
Issue:2022.05.12.22274089 Version 1
Edition:Version 1
Page Number:15
Dewey Decimal Classification:6 Technik, Medizin, angewandte Wissenschaften / 61 Medizin und Gesundheit / 610 Medizin und Gesundheit
Licence (German):License LogoCreative Commons - CC BY-NC-ND - Namensnennung - Nicht kommerziell - Keine Bearbeitungen 4.0 International