Mapping Cancer Registry Data to the Episode Domain of the Observational Medical Outcomes Partnership Model (OMOP)

A great challenge in the use of standardized cancer registry data is deriving reliable, evidence-based results from large amounts of data. A solution could be its mapping to a common data model such as OMOP, which represents knowledge in a unified semantic base, enabling decentralized analysis. The...

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Bibliographic Details
Published in:Applied sciences 2022-04, Vol.12 (8), p.4010
Main Authors: Carus, Jasmin, Nürnberg, Sylvia, Ückert, Frank, Schlüter, Catarina, Bartels, Stefan
Format: Article
Language:English
Subjects:
Artificial intelligence
Cancer
cancer registry
Collaboration
common data model
Consortia
Data exchange
Data models
Deep learning
Domains
Health services
Mapping
Medical research
Mutation
OMOP
Oncology
Patients
semantic interoperability
Semantics
standardized vocabulary
translational cancer research
Tumors
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Summary:A great challenge in the use of standardized cancer registry data is deriving reliable, evidence-based results from large amounts of data. A solution could be its mapping to a common data model such as OMOP, which represents knowledge in a unified semantic base, enabling decentralized analysis. The recently released Episode Domain of the OMOP CDM allows episodic modelling of a patient’ disease and treatment phases. In this study, we mapped oncology registry data to the Episode Domain. A total of 184,718 Episodes could be implemented, with the Concept of Cancer Drug Treatment most frequently. Additionally, source data were mapped to new terminologies as part of the release. It was possible to map ≈ 73.8% of the source data to the respective OMOP standard. Best mapping was achieved in the Procedure Domain with 98.7%. To evaluate the implementation, the survival probabilities of the CDM and source system were calculated (n = 2756/2902, median OAS = 82.2/91.1 months, 95% Cl = 77.4–89.5/84.4–100.9). In conclusion, the new release of the CDM increased its applicability, especially in observational cancer research. Regarding the mapping, a higher score could be achieved if terminologies which are frequently used in Europe are included in the Standardized Vocabulary Metadata Repository.
ISSN:2076-3417
2076-3417
DOI:10.3390/app12084010