FHIR to OMOP FHIR IG
0.1.0 - ci-build 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 0.1.0 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: 0.1.0
Standards status: Draft Maturity Level: 1 Computable Name: Specimen

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

Usage:

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

Formal Views of Profile Content

Description of Profiles, Differentials, Snapshots and how the different presentations work.

This structure is derived from Base

NameFlagsCard.TypeDescription & Constraintsdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to 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 & Constraintsdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to 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 & Constraintsdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to 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

This structure is derived from Base

Summary

Mandatory: 0 element(5 nested mandatory elements)

Structures

This structure refers to these other structures:

Maturity: 1

Differential View

This structure is derived from Base

NameFlagsCard.TypeDescription & Constraintsdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to 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

Key Elements View

NameFlagsCard.TypeDescription & Constraintsdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to 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 View

NameFlagsCard.TypeDescription & Constraintsdoco
.. Specimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to 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

This structure is derived from Base

Summary

Mandatory: 0 element(5 nested mandatory elements)

Structures

This structure refers to these other structures:

Maturity: 1

 

Other representations of profile: CSV, Excel