FHIR to OMOP FHIR IG
2.0.0-ballot - STU 1 Ballot International flag

FHIR to OMOP FHIR IG, published by HL7 International / Biomedical Research and Regulation. This guide is not an authorized publication; it is the continuous build for version 2.0.0-ballot built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/HL7/fhir-omop-ig/ and changes regularly. See the Directory of published versions

Table of Contents

Page standards status: Informative
0 Table of Contents
1 Introduction
2 OMOP CDM
3 Use Cases
4 Source Data Acquisition and Expectations
5 Identifiers, De-identification and Privacy
6 Common Challenges When Transforming FHIR to OMOP
7 Transformation Strategies & Best Practices
8 Understanding FHIR Modifier Extensions
9 Coded Field Mapping Principles
10 FHIR to OMOP Code Mapping Patterns
11 CodeableConcept Mapping Patterns
12 Value-as-Concept Mapping Pattern
13 Populating Race and Ethnicity
14 Technical Artifacts
15 Actors
16 Conformance Statements
17 Terminology Server API Utilization
18 Change Log
19 Acknowledgements
20 Artifacts Summary
20.1 ETL Implementer
20.2 FHIR Source System
20.3 OMOP Target Instance
20.4 Terminology Server
20.5 Transformation Engine
20.6 Narrative Conformance Statements
20.7 CareSite OMOP Table
20.8 Condition Era OMOP Table
20.9 Condition Occurrence OMOP Table
20.10 Cost OMOP Table
20.11 Death OMOP Table
20.12 Device Exposure OMOP Table
20.13 Dose Era OMOP Table
20.14 Drug Era OMOP Table
20.15 Drug Exposure OMOP Table
20.16 Episode Event OMOP Table
20.17 Episode OMOP Table
20.18 Fact Relationship OMOP Table
20.19 Location OMOP Table
20.20 Measurement OMOP Table
20.21 Note NLP OMOP Table
20.22 Note OMOP Table
20.23 Observation OMOP Table
20.24 Observation Period OMOP Table
20.25 Patient Record Setting
20.26 Payer Plan Period OMOP Table
20.27 Person OMOP Table
20.28 Procedure Occurrence OMOP Table
20.29 Provider OMOP Table
20.30 Specimen OMOP Table
20.31 Visit Detail OMOP Table
20.32 Visit Occurrence OMOP Table
20.33 FHIR to OMOP Conformance Statement Categories
20.34 FHIR to OMOP Requirement Codes
20.35 Mapping Allergy resource to Observation OMOP Domain
20.36 Mapping Allergy resource to Observation OMOP Domain V4
20.37 Mapping Blood Pressure Vital Signs resource to Measurement OMOP Domain
20.38 Mapping Blood Pressure Vital Signs resource to Measurement OMOP Domain V4
20.39 Mapping Condition resource to Condition Occurrence OMOP Domain
20.40 Mapping Condition resource to Condition Occurrence OMOP Domain V4
20.41 Mapping Encounter resource to VisitOccurrence OMOP Domain
20.42 Mapping Encounter resource to VisitOccurrence OMOP Domain V4
20.43 Mapping Immunization resource to Drug Exposure OMOP Domain
20.44 Mapping Immunization resource to Drug Exposure OMOP Domain V4
20.45 Mapping Observation resource to Measurement OMOP Domain
20.46 Mapping Observation resource to Measurement OMOP Domain V4
20.47 Mapping Observation resource to Observation OMOP Domain
20.48 Mapping Observation resource to Observation OMOP Domain V4
20.49 Mapping Patient resource to Person OMOP Domain
20.50 Mapping Patient resource to Person OMOP Domain V4
20.51 Mapping Procedure resource to Procedure Occurrence OMOP Domain
20.52 Mapping Procedure resource to Procedure Occurrence OMOP Domain V4
20.53 Mapping an International Patient Summary resource to OMOP domains collected in a RecordSet resource
20.54 Mapping an International Patient Summary resource to OMOP domains collected in a RecordSet resource V4
20.55 Mapping Vital Ssigns resource to Measurement OMOP Domain
20.56 Mapping Vital Ssigns resource to Measurement OMOP Domain V4
20.57 Mapping MedicationStatement resource to DrugExposure OMOP Domain
20.58 Mapping MedicationStatement resource to DrugExposure OMOP Domain V4
20.59 AdministrativeGender codes to OMOP
20.60 AllergyIntolerance allergy category codes to OMOP
20.61 AllergyIntolerance intolerance category codes to OMOP
20.62 AllergyIntolerance substance codes to OMOP
20.63 Blood Pressure codes to OMOP
20.64 Clinical Findings codes to OMOP
20.65 Condition status codes to OMOP
20.66 Encounter Admission Source codes to OMOP
20.67 Encounter Class codes to OMOP
20.68 Encounter Discharge Disposition codes to OMOP
20.69 Immunization information source codes to OMOP
20.70 Immunization route codes to OMOP
20.71 Immunization vaccine codes to OMOP
20.72 Procedure type codes to OMOP
20.73 VitalSign codes to OMOP