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Observational Medical Outcomes Partnership (OMOP)
Observational Medical Outcomes Partnership
The data models of i2b2 and OMOP have many similarities. We take advantage of these similarities to offer an evolution of the i2b2 software that adapts to the OMOP data model. This allows the query formulation in the i2b2 software that relies on the i2b2 Application Programming Interface (API) to be utilized on top of an OMOP data source. As a result, most of the functionality of i2b2 Software is preserved on an OMOP data source (with proper respect to the OHDSI ontologies). As a result a SHRINE tool or a SMART-on-FHIR tool that relies on the i2b2 API, over OHDSI ontologies, can run with an OMOP data source.
The standard i2b2 data model is comprised of a central fact table (observation_fact) surrounded by multiple dimension tables arranged in a star schema. In the Observational Medical Outcomes Partnership Common Data Model (OMOP CDM), rather than a central fact table, we have a collection of them distinguished by domain: procedures, condition, drug, measurement, observation, etc. In this project, we modify the CRC to run queries against multiple domain fact tables as dictated by the metadata.
This software package is designed to run with OMOP version 5. The sample metadata provided is intended to run queries against the CMS SynPUF 1K data set provided by OMOP (https://www.ohdsi.org/data-standardization/ bottom of page). It is recommended that users of this software are familiar with OMOP and it is required that the synPUF data is installed.
For more information about the OMOP project, see https://www.ohdsi.org/
|I Want to...||Where to Find it|
|Read about the i2b2 on OMOP project||i2b2 on OMOP v5 wiki page|
|Download the software for the i2b2 on OMOP project||Software for i2b2 on OMOP wiki page|
|View the installation document for the i2b2 on OMOP project||Installation Document|
|View information about the OMOP-CDM collaborative||Observational Health Data Sciences and Informatics (OHDSI) website|
|View information about the OMOP Common Data Model (CDM)||OMOP CDM page on OHDSI website|