Guide d'implémentation du GT Standards et Interopérabilité pour les EDS
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Logical Model: Specimen OMOP Table

Official URL: https://interop.esante.gouv.fr/ig/fhir/eds/StructureDefinition/OMOPSpecimen Version: 0.1.0
Draft as of 2024-09-10 Computable Name: OMOPSpecimen

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
.. OMOPSpecimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to be the target of a Reference
... specimen_id 1..1 integer Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 Reference(Concept OMOP Table) 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 Reference(Concept OMOP Table) Unit
... anatomic_site_concept_id 0..1 Reference(Concept OMOP Table) Anatomic Site
... disease_status_concept_id 0..1 Reference(Concept OMOP Table) 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
.. OMOPSpecimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to be the target of a Reference
... specimen_id 1..1 integer Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 Reference(Concept OMOP Table) 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 Reference(Concept OMOP Table) Unit
... anatomic_site_concept_id 0..1 Reference(Concept OMOP Table) Anatomic Site
... disease_status_concept_id 0..1 Reference(Concept OMOP Table) 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
.. OMOPSpecimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to be the target of a Reference
... specimen_id 1..1 integer Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 Reference(Concept OMOP Table) 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 Reference(Concept OMOP Table) Unit
... anatomic_site_concept_id 0..1 Reference(Concept OMOP Table) Anatomic Site
... disease_status_concept_id 0..1 Reference(Concept OMOP Table) 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

Differential View

This structure is derived from Base

NameFlagsCard.TypeDescription & Constraintsdoco
.. OMOPSpecimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to be the target of a Reference
... specimen_id 1..1 integer Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 Reference(Concept OMOP Table) 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 Reference(Concept OMOP Table) Unit
... anatomic_site_concept_id 0..1 Reference(Concept OMOP Table) Anatomic Site
... disease_status_concept_id 0..1 Reference(Concept OMOP Table) 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
.. OMOPSpecimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to be the target of a Reference
... specimen_id 1..1 integer Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 Reference(Concept OMOP Table) 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 Reference(Concept OMOP Table) Unit
... anatomic_site_concept_id 0..1 Reference(Concept OMOP Table) Anatomic Site
... disease_status_concept_id 0..1 Reference(Concept OMOP Table) 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
.. OMOPSpecimen 0..* Base Specimen OMOP Table
Instances of this logical model are not marked to be the target of a Reference
... specimen_id 1..1 integer Specimen Identifier
... person_id 1..1 Reference(Person OMOP Table) Person
... specimen_concept_id 1..1 Reference(Concept OMOP Table) 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 Reference(Concept OMOP Table) Unit
... anatomic_site_concept_id 0..1 Reference(Concept OMOP Table) Anatomic Site
... disease_status_concept_id 0..1 Reference(Concept OMOP Table) 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

 

Other representations of profile: CSV, Excel