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Ontology

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mim18 edited this page Sep 15, 2022 · 31 revisions

Current Ontology Version

The ACT Network is currently using ACT Ontology 2.0.1, which rolled out through all active and staging ACT sites to better meet the needs of clinical investigators and CTSA hubs. This new version provides a substantial increase in the available data elements, including CPT, HCPCS, ICD10 procedures, a full set of LOINC codes and additional medications.

A summary overview of the changes made can be found here.

Release Notes

NEW Ontologies

  • CPT Procedures - UMLS 2018AA (Remember only sites that have valid CPT licenses are permitted to use CPT ontology)
  • HCPCS Procedures - UMLS 2018AA
  • ICD10 PCS Procedures - UMLS 2018AA
  • ICD10 CM Diagnosis - UMLS 2018AA
  • Labs LOINC Provisional - Full LOINC tree - UMLS 2018AA LOINC V2.63
  • Medications by Ingredient - Hybrid UMLS 2018AA RxNorm? files and RxNav?

Updated Ontologies

  • ICD9 Diagnosis - UMLS 2018AA modified format. Ordered by code.
  • ICD9 Procedures - UMLS 2018AA modified format. Ordered by code.
  • Medication by VA Class - RxNav? NDFRT and RxNorm? APIs updated to September 2018
  • Demographics - Added Adult >= 18 and Child < 18 terms

Unchanged

  • ICD10/ICD9 Integrated - Curated UMLS 2015AB
  • Visit Details
  • Lab - Curated Approx. 300 Labs

Other Updated Files

  • Schemes
  • Table Access
  • SHRINE Adapter Mapping

Breakdown (coming soon)

Ontology Scripts

ACT Ontology Modifier Removal: The Oracle script to remove modifiers can be found here.

Ontology Installation

All of the ontology installation files can be found in this repository.

Installation instructions for the current ontology can be found here.

Current Ontology Documentation

Data Harmonization

Outputs and work products from the Data Harmonization Workgroup can be found here.

Ontology Archive

Archived ontology documentation can be found in this repository.

Ontology Demo Server

ACT ontology on i2b2 Web Client

Username: demo Password: demouser

Ontology Training Material

i2b2 Transmart Training Program - Ontology For Beginners - Mike Mendis

Contact Information

For additional information, please contact Michele Morris at [email protected].

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