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Typically, the concepts that make up the various categories are based on medical terminology standards published by various institutions. Concepts can also be created ad hoc for a specific i2b2 instance by the i2b2 administrator for that site. (For more information on custom metadata, please see Ontologies 201.)
The commonly used standards representing basic structured clinical patient data are represented by a number of different "coding schemes" — ICD-9, ICD-10, CPT-4, HCPCS, SNOMED CT, LOINC, RxNorm, UMLS, and VA Classes. We mention this here because these codes appear inside the ontology tables, and they are also referenced in the user interface. See Appendix B for further information.
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Name | Folder | Description | When To Use | Target Data Model |
|---|---|---|---|---|
| i2b2 Demo Ontology | demo | default metadata from i2b2 authors; legacy categories | demonstration | i2b2 Common Data Model (star-schema) |
| ACT Ontology | act | modern categories and concepts, supplied by the ENACT project | production | i2b2 Common Data Model (star-schema) |
| ACT-on-OMOP Ontology | act-omop | modern categories and concepts, supplied by the ENACT project | production, at sites using OMOP CDM | multi-fact-table-enhanced i2b2 Common Data Model (star-schema) |
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Actually, I inherited an i2b2 instance. How can I tell which ontology it's using?
Please You may compare the tables in your ONT database with the variations shown in Appendix D – i2b2 Ontology Tables.
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- Visit Appendix D – i2b2 Ontology Tables to learn more about the structure of the ontology databasemetadata.
- Visit Appendix E – Test Queries to learn how to run some "sanity check" queries on your new databaseONT and CRC databases.
- Visit Ontologies 102 – Patient Counts ("
totalnum") to learn how to add patient counts to your ontology concepts in the user interface.
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