Saketh Boddapati
Pronouns: He/Him
Research Mentor(s): Yongqun He
Research Mentor School/College/Department: / 0
Program:
Authors:
Session: Session 4: 1:40 pm – 2:30 pm
Poster: 80
Abstract
The Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM) has been widely used as an open community data standard in observational data integration and analysis. However, different elements in the CDM lack clear semantics, which weakens the data interoperability and pattern recognition at the high CDM level. In this study, we report our effort of developing the OMOP-2-OPMI, an integrated subset of the Ontology of Precision Medicine and Investigation (OPMI) that ontologizes all the OMOP CDM elements and their relations. Over 180 terms from 15 OMOP CDM tables have been mapped to the terms in OPMI, which include OPMI-specific terms with the OPMI namespace and terms imported from other reference ontologies to OPMI. OMOP-2-OPMI also includes a set of ancestor terms of these CDM terms, which lays out the hierarchical structure of all the OMOP CDM terms. A set of semantic relations are also built up among different CDM terms in OMOP-2-OPMI. An ontology OWL file of OMOP-2-OPMI was also generated and is available in the OPMI GitHub website. To further demonstrate the usage of the OMOP-2-OPMI, we have also started to generate a list of semantic design patterns by utilizing the OMOP-2-OPMI semantic relations to model and define different electronic health data types such as vaccine adverse events and kidney disease following COVID-19 infection. Overall, OMOP-2-OPMI complements and empowers OMOP CDM and its associated databases for enhanced clinical data standardization, sharing, interoperability, and analysis.
