Guide d'implémentation du GT Standards et Interopérabilité pour les EDS
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Guide d'implémentation du GT Standards et Interopérabilité pour les EDS - Local Development build (v0.1.0) built by the FHIR (HL7® FHIR® Standard) Build Tools. See the Directory of published versions

Logical Model: OMOPSpecimen - Detailed Descriptions

Draft as of 2024-11-23

Definitions for the OMOPSpecimen logical model.

Guidance on how to interpret the contents of this table can be found here

0. OMOPSpecimen
Definition

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

ShortSpecimen OMOP Table
Logical ModelInstances of this logical model are not marked to be the target of a Reference
2. OMOPSpecimen.specimen-id
Definition

Specimen Identifier

ShortSpecimen Identifier
Control1..1
Typeinteger
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
4. OMOPSpecimen.person-id
Definition

The person from whom the specimen is collected.

ShortPerson
Control1..1
TypeReference(Person OMOP Table)
6. OMOPSpecimen.specimen-concept-id
Definition

Specimen

ShortSpecimen
Control1..1
TypeReference(Concept OMOP Table)
8. OMOPSpecimen.specimen-type-concept-id
Definition

Specimen Type

ShortSpecimen Type
Control1..1
TypeReference(Concept OMOP Table)
10. OMOPSpecimen.specimen-date
Definition

The date the specimen was collected.

ShortSpecimen Date
Control1..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
12. OMOPSpecimen.specimen-datetime
Definition

Specimen Datetime

ShortSpecimen Datetime
Control0..1
TypedateTime
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
14. OMOPSpecimen.quantity
Definition

The amount of specimen collected from the person.

ShortQuantity
Control0..1
Typeinteger
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
16. OMOPSpecimen.unit-concept-id
Definition

The unit for the quantity of the specimen.

ShortUnit
Control0..1
TypeReference(Concept OMOP Table)
18. OMOPSpecimen.anatomic-site-concept-id
Definition

This is the site on the body where the specimen is from.

ShortAnatomic Site
Control0..1
TypeReference(Concept OMOP Table)
20. OMOPSpecimen.disease-status-concept-id
Definition

Disease Status

ShortDisease Status
Control0..1
TypeReference(Concept OMOP Table)
22. OMOPSpecimen.specimen-source-id
Definition

This is the identifier for the specimen from the source system.

ShortSpecimen Source
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
24. OMOPSpecimen.specimen-source-value
Definition

Specimen Source Value

ShortSpecimen Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
26. OMOPSpecimen.unit-source-value
Definition

Unit Source Value

ShortUnit Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
28. OMOPSpecimen.anatomic-site-source-value
Definition

Anatomic Site Source Value

ShortAnatomic Site Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
30. OMOPSpecimen.disease-status-source-value
Definition

Disease Site Source Value

ShortDisease Site Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension

Guidance on how to interpret the contents of this table can be found here

0. OMOPSpecimen
Definition

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

ShortSpecimen OMOP Table
Control0..*
Is Modifierfalse
Logical ModelInstances of this logical model are not marked to be the target of a Reference
2. OMOPSpecimen.specimen-id
Definition

Specimen Identifier

ShortSpecimen Identifier
Control1..1
Typeinteger
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
4. OMOPSpecimen.person-id
Definition

The person from whom the specimen is collected.

ShortPerson
Control1..1
TypeReference(Person OMOP Table)
6. OMOPSpecimen.specimen-concept-id
Definition

Specimen

ShortSpecimen
Control1..1
TypeReference(Concept OMOP Table)
8. OMOPSpecimen.specimen-type-concept-id
Definition

Specimen Type

ShortSpecimen Type
Control1..1
TypeReference(Concept OMOP Table)
10. OMOPSpecimen.specimen-date
Definition

The date the specimen was collected.

ShortSpecimen Date
Control1..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
12. OMOPSpecimen.specimen-datetime
Definition

Specimen Datetime

ShortSpecimen Datetime
Control0..1
TypedateTime
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
14. OMOPSpecimen.quantity
Definition

The amount of specimen collected from the person.

ShortQuantity
Control0..1
Typeinteger
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
16. OMOPSpecimen.unit-concept-id
Definition

The unit for the quantity of the specimen.

ShortUnit
Control0..1
TypeReference(Concept OMOP Table)
18. OMOPSpecimen.anatomic-site-concept-id
Definition

This is the site on the body where the specimen is from.

ShortAnatomic Site
Control0..1
TypeReference(Concept OMOP Table)
20. OMOPSpecimen.disease-status-concept-id
Definition

Disease Status

ShortDisease Status
Control0..1
TypeReference(Concept OMOP Table)
22. OMOPSpecimen.specimen-source-id
Definition

This is the identifier for the specimen from the source system.

ShortSpecimen Source
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
24. OMOPSpecimen.specimen-source-value
Definition

Specimen Source Value

ShortSpecimen Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
26. OMOPSpecimen.unit-source-value
Definition

Unit Source Value

ShortUnit Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
28. OMOPSpecimen.anatomic-site-source-value
Definition

Anatomic Site Source Value

ShortAnatomic Site Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
30. OMOPSpecimen.disease-status-source-value
Definition

Disease Site Source Value

ShortDisease Site Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension

Guidance on how to interpret the contents of this table can be found here

0. OMOPSpecimen
Definition

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

ShortSpecimen OMOP Table
Control0..*
Is Modifierfalse
Logical ModelInstances of this logical model are not marked to be the target of a Reference
2. OMOPSpecimen.specimen-id
Definition

Specimen Identifier

ShortSpecimen Identifier
Control1..1
Typeinteger
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
4. OMOPSpecimen.person-id
Definition

The person from whom the specimen is collected.

ShortPerson
Control1..1
TypeReference(Person OMOP Table)
6. OMOPSpecimen.specimen-concept-id
Definition

Specimen

ShortSpecimen
Control1..1
TypeReference(Concept OMOP Table)
8. OMOPSpecimen.specimen-type-concept-id
Definition

Specimen Type

ShortSpecimen Type
Control1..1
TypeReference(Concept OMOP Table)
10. OMOPSpecimen.specimen-date
Definition

The date the specimen was collected.

ShortSpecimen Date
Control1..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
12. OMOPSpecimen.specimen-datetime
Definition

Specimen Datetime

ShortSpecimen Datetime
Control0..1
TypedateTime
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
14. OMOPSpecimen.quantity
Definition

The amount of specimen collected from the person.

ShortQuantity
Control0..1
Typeinteger
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
16. OMOPSpecimen.unit-concept-id
Definition

The unit for the quantity of the specimen.

ShortUnit
Control0..1
TypeReference(Concept OMOP Table)
18. OMOPSpecimen.anatomic-site-concept-id
Definition

This is the site on the body where the specimen is from.

ShortAnatomic Site
Control0..1
TypeReference(Concept OMOP Table)
20. OMOPSpecimen.disease-status-concept-id
Definition

Disease Status

ShortDisease Status
Control0..1
TypeReference(Concept OMOP Table)
22. OMOPSpecimen.specimen-source-id
Definition

This is the identifier for the specimen from the source system.

ShortSpecimen Source
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
24. OMOPSpecimen.specimen-source-value
Definition

Specimen Source Value

ShortSpecimen Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
26. OMOPSpecimen.unit-source-value
Definition

Unit Source Value

ShortUnit Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
28. OMOPSpecimen.anatomic-site-source-value
Definition

Anatomic Site Source Value

ShortAnatomic Site Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
30. OMOPSpecimen.disease-status-source-value
Definition

Disease Site Source Value

ShortDisease Site Source Value
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension