FHIR to OMOP FHIR IG
1.0.0 - INFORMATIVE 1 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 1.0.0 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

Logical Model: Specimen OMOP Table

Official URL: http://hl7.org/fhir/uv/omop/StructureDefinition/Specimen Version: 1.0.0
Standards status: Informative Active as of 2026-02-12 Maturity Level: 1 Computable Name: Specimen

The specimen domain contains the records identifying biological samples from a person.

Usages:

  • This Logical Model is not used by any profiles in this Implementation Guide

You can also check for usages in the FHIR IG Statistics

Formal Views of Profile Content

Description Differentials, Snapshots, and other representations.

NameFlagsCard.TypeDescription & Constraints    Filter: Filtersdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model can be the target of a Reference
... specimen_id 1..1 code Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 code Specimen
... specimen_date 1..1 date Specimen Date
... specimen_datetime 0..1 dateTime Specimen Datetime
... quantity 0..1 integer Quantity
... unit_concept_id 0..1 code Unit
... anatomic_site_concept_id 0..1 code Anatomic Site
... disease_status_concept_id 0..1 code Disease Status
... specimen_source_id 0..1 string Specimen Source
... specimen_source_value 0..1 string Specimen Source Value
... unit_source_value 0..1 string Unit Source Value
... anatomic_site_source_value 0..1 string Anatomic Site Source Value
... disease_status_source_value 0..1 string Disease Site Source Value

doco Documentation for this format
NameFlagsCard.TypeDescription & Constraints    Filter: Filtersdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model can be the target of a Reference
... specimen_id 1..1 code Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 code Specimen
... specimen_date 1..1 date Specimen Date
... specimen_datetime 0..1 dateTime Specimen Datetime
... quantity 0..1 integer Quantity
... unit_concept_id 0..1 code Unit
... anatomic_site_concept_id 0..1 code Anatomic Site
... disease_status_concept_id 0..1 code Disease Status
... specimen_source_id 0..1 string Specimen Source
... specimen_source_value 0..1 string Specimen Source Value
... unit_source_value 0..1 string Unit Source Value
... anatomic_site_source_value 0..1 string Anatomic Site Source Value
... disease_status_source_value 0..1 string Disease Site Source Value

doco Documentation for this format

Summary

Mandatory: 0 element(5 nested mandatory elements)

Structures

This structure refers to these other structures:

Maturity: 1

Differential View

NameFlagsCard.TypeDescription & Constraints    Filter: Filtersdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model can be the target of a Reference
... specimen_id 1..1 code Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 code Specimen
... specimen_date 1..1 date Specimen Date
... specimen_datetime 0..1 dateTime Specimen Datetime
... quantity 0..1 integer Quantity
... unit_concept_id 0..1 code Unit
... anatomic_site_concept_id 0..1 code Anatomic Site
... disease_status_concept_id 0..1 code Disease Status
... specimen_source_id 0..1 string Specimen Source
... specimen_source_value 0..1 string Specimen Source Value
... unit_source_value 0..1 string Unit Source Value
... anatomic_site_source_value 0..1 string Anatomic Site Source Value
... disease_status_source_value 0..1 string Disease Site Source Value

doco Documentation for this format

Snapshot ViewView

NameFlagsCard.TypeDescription & Constraints    Filter: Filtersdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model can be the target of a Reference
... specimen_id 1..1 code Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 code Specimen
... specimen_date 1..1 date Specimen Date
... specimen_datetime 0..1 dateTime Specimen Datetime
... quantity 0..1 integer Quantity
... unit_concept_id 0..1 code Unit
... anatomic_site_concept_id 0..1 code Anatomic Site
... disease_status_concept_id 0..1 code Disease Status
... specimen_source_id 0..1 string Specimen Source
... specimen_source_value 0..1 string Specimen Source Value
... unit_source_value 0..1 string Unit Source Value
... anatomic_site_source_value 0..1 string Anatomic Site Source Value
... disease_status_source_value 0..1 string Disease Site Source Value

doco Documentation for this format

Summary

Mandatory: 0 element(5 nested mandatory elements)

Structures

This structure refers to these other structures:

Maturity: 1

 

Other representations of profile: CSV, Excel