SGHI FHIR Profile Implementation Guide, published by Kathurima Kimathi. 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/savannahghi/sil_fhir_profile_ig/ and changes regularly. See the Directory of published versions

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Resource Profile: SGHI Specimen

A sample to be used for analysis.

Usages:

• Examples for this Profile: Specimen/ExampleSGHISpecimen

You can also check for usages in the FHIR IG Statistics

Formal Views of Profile Content

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

• Key Elements Table
• Differential Table
• Snapshot Table
• Statistics/References
• All

Name	Flags	Card.	Type	Description & Constraints    Filter: Bindings Constraints Obligations
Specimen		0..*	Specimen	Sample for analysis
implicitRules	?!Σ	0..1	uri	A set of rules under which this content was created
contained		0..*	Resource	Contained, inline Resources
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored
identifier	Σ	1..*	Identifier	External Identifier
use	?!Σ	0..1	code	usual | official | temp | secondary | old (If known) Binding: IdentifierUse (required)
type	Σ	0..1	SGHICodeableConcept	Description of identifier Binding: SGHI Standard Identifier Types (required)
system	Σ	1..1	uri	The namespace for the identifier value Example General: http://www.acme.com/identifiers/patient
value	ΣC	1..1	string	The value that is unique Example General: 123456
assigner	Σ	1..1	SGHIReference(SGHI Organization)	Organization that issued id (may be just text)
accessionIdentifier	Σ	1..1	Identifier	Identifier assigned by the lab
status	?!Σ	1..1	code	available | unavailable | unsatisfactory | entered-in-error Binding: SpecimenStatus (required): Codes providing the status/availability of a specimen.
subject	Σ	1..1	SGHIReference(SGHI Patient)	Where the specimen came from. This may be from patient(s), from a location (e.g., the source of an environmental sample), or a sampling of a substance, a biologically-derived product, or a device
receivedTime	Σ	1..1	dateTime	The time when specimen is received by the testing laboratory
role		1..*	SGHICodeableConcept	The role the specimen serves Binding: SpecimenRole (preferred): Codes describing specimen role.
collection		1..1	BackboneElement	Collection details
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
collector	Σ	0..1	SGHIReference(SGHI Practitioner)	Who collected the specimen
collected[x]	Σ	1..1		Collection time
collectedDateTime			dateTime
collectedPeriod			Period
processing		1..1	BackboneElement	Processing and processing step details
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
method		1..1	SGHICodeableConcept	Indicates the treatment step applied to the specimen Binding: Specimen Type Value Sets (required)
additive		0..*	SGHIReference(Substance)	Material used in the processing step
Documentation for this format

Terminology Bindings

Path	Conformance	ValueSet	URI
Specimen.identifier.use	required	IdentifierUse http://hl7.org/fhir/ValueSet/identifier-use From the FHIR Standard
Specimen.identifier.type	required	SGHIIdentifierTypes https://fhir.slade360.co.ke/fhir/ValueSet/sghi-identifier-types From this IG
Specimen.status	required	SpecimenStatus http://hl7.org/fhir/ValueSet/specimen-status|5.0.0 From the FHIR Standard
Specimen.role	preferred	SpecimenRole http://hl7.org/fhir/ValueSet/specimen-role|5.0.0 From the FHIR Standard
Specimen.processing.method	required	SGHISpecimenTypeVs https://fhir.slade360.co.ke/fhir/ValueSet/sghi-specimentype From this IG

Constraints

Id	Grade	Path(s)	Details	Requirements
dom-2	error	Specimen	If the resource is contained in another resource, it SHALL NOT contain nested Resources : contained.contained.empty()
dom-3	error	Specimen	If the resource is contained in another resource, it SHALL be referred to from elsewhere in the resource or SHALL refer to the containing resource : contained.where((('#'+id in (%resource.descendants().reference | %resource.descendants().ofType(canonical) | %resource.descendants().ofType(uri) | %resource.descendants().ofType(url))) or descendants().where(reference = '#').exists() or descendants().where(ofType(canonical) = '#').exists() or descendants().where(ofType(canonical) = '#').exists()).not()).trace('unmatched', id).empty()
dom-4	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a meta.versionId or a meta.lastUpdated : contained.meta.versionId.empty() and contained.meta.lastUpdated.empty()
dom-5	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a security label : contained.meta.security.empty()
dom-6	best practice	Specimen	A resource should have narrative for robust management : text.`div`.exists()
ele-1	error	**ALL** elements	All FHIR elements must have a @value or children : hasValue() or (children().count() > id.count())
ext-1	error	**ALL** extensions	Must have either extensions or value[x], not both : extension.exists() != value.exists()

This structure is derived from Specimen

Name	Flags	Card.	Type	Description & Constraints    Filter: Bindings Constraints Obligations
Specimen		0..*	Specimen	Sample for analysis
identifier		1..*	Identifier	External Identifier
use		0..1	code	usual | official | temp | secondary | old (If known) Binding: IdentifierUse (required)
type		0..1	SGHICodeableConcept	Description of identifier Binding: SGHI Standard Identifier Types (required)
system		1..1	uri	The namespace for the identifier value
value		1..1	string	The value that is unique
assigner		1..1	SGHIReference(SGHI Organization)	Organization that issued id (may be just text)
accessionIdentifier		1..1	Identifier	Identifier assigned by the lab
status		1..1	code	available | unavailable | unsatisfactory | entered-in-error
subject		1..1	SGHIReference(SGHI Patient)	Where the specimen came from. This may be from patient(s), from a location (e.g., the source of an environmental sample), or a sampling of a substance, a biologically-derived product, or a device
receivedTime		1..1	dateTime	The time when specimen is received by the testing laboratory
role		1..*	SGHICodeableConcept	The role the specimen serves
collection		1..1	BackboneElement	Collection details
collector		0..1	SGHIReference(SGHI Practitioner)	Who collected the specimen
collected[x]		1..1	dateTime, Period	Collection time
processing		1..1	BackboneElement	Processing and processing step details
method		1..1	SGHICodeableConcept	Indicates the treatment step applied to the specimen Binding: Specimen Type Value Sets (required)
additive		0..*	SGHIReference(Substance)	Material used in the processing step
Documentation for this format

Terminology Bindings (Differential)

Path	Conformance	ValueSet	URI
Specimen.identifier.use	required	IdentifierUse http://hl7.org/fhir/ValueSet/identifier-use From the FHIR Standard
Specimen.identifier.type	required	SGHIIdentifierTypes https://fhir.slade360.co.ke/fhir/ValueSet/sghi-identifier-types From this IG
Specimen.processing.method	required	SGHISpecimenTypeVs https://fhir.slade360.co.ke/fhir/ValueSet/sghi-specimentype From this IG

Name	Flags	Card.	Type	Description & Constraints    Filter: Bindings Constraints Obligations
Specimen		0..*	Specimen	Sample for analysis
id	Σ	0..1	id	Logical id of this artifact
meta	Σ	0..1	Meta	Metadata about the resource
implicitRules	?!Σ	0..1	uri	A set of rules under which this content was created
language		0..1	code	Language of the resource content Binding: AllLanguages (required): IETF language tag for a human language Additional Bindings Purpose CommonLanguages Starter
text		0..1	Narrative	Text summary of the resource, for human interpretation This profile does not constrain the narrative in regard to content, language, or traceability to data elements
contained		0..*	Resource	Contained, inline Resources
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored
identifier	Σ	1..*	Identifier	External Identifier
id		0..1	id	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations Slice: Unordered, Open by value:url
use	?!Σ	0..1	code	usual | official | temp | secondary | old (If known) Binding: IdentifierUse (required)
type	Σ	0..1	SGHICodeableConcept	Description of identifier Binding: SGHI Standard Identifier Types (required)
system	Σ	1..1	uri	The namespace for the identifier value Example General: http://www.acme.com/identifiers/patient
value	ΣC	1..1	string	The value that is unique Example General: 123456
period	Σ	0..1	Period	Time period when id is/was valid for use
assigner	Σ	1..1	SGHIReference(SGHI Organization)	Organization that issued id (may be just text)
accessionIdentifier	Σ	1..1	Identifier	Identifier assigned by the lab
status	?!Σ	1..1	code	available | unavailable | unsatisfactory | entered-in-error Binding: SpecimenStatus (required): Codes providing the status/availability of a specimen.
type	Σ	0..1	CodeableConcept	Kind of material that forms the specimen Binding: hl7VS-specimenType (example): The type of the specimen.
subject	Σ	1..1	SGHIReference(SGHI Patient)	Where the specimen came from. This may be from patient(s), from a location (e.g., the source of an environmental sample), or a sampling of a substance, a biologically-derived product, or a device
receivedTime	Σ	1..1	dateTime	The time when specimen is received by the testing laboratory
parent		0..*	Reference(Specimen)	Specimen from which this specimen originated
request		0..*	Reference(ServiceRequest)	Why the specimen was collected
combined	Σ	0..1	code	grouped | pooled Binding: SpecimenCombined (required): Codes for the combined status of a specimen.
role		1..*	SGHICodeableConcept	The role the specimen serves Binding: SpecimenRole (preferred): Codes describing specimen role.
feature		0..*	BackboneElement	The physical feature of a specimen
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
type		1..1	CodeableConcept	Highlighted feature Binding: SNOMEDCTBodyStructures (example): SNOMED CT Body site concepts
description		1..1	string	Information about the feature
collection		1..1	BackboneElement	Collection details
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
collector	Σ	0..1	SGHIReference(SGHI Practitioner)	Who collected the specimen
collected[x]	Σ	1..1		Collection time
collectedDateTime			dateTime
collectedPeriod			Period
duration	Σ	0..1	Duration	How long it took to collect specimen
quantity		0..1	SimpleQuantity(5.0.0)	The quantity of specimen collected
method		0..1	CodeableConcept	Technique used to perform collection Binding: FHIRSpecimenCollectionMethod (example): The technique that is used to perform the procedure.
device		0..1	CodeableReference(Device)	Device used to perform collection Binding Description: (example): The device that was used to obtain the specimen (e.g. a catheter or catheter part used to draw the blood via a central line).
procedure		0..1	Reference(Procedure)	The procedure that collects the specimen
bodySite		0..1	CodeableReference(BodyStructure)	Anatomical collection site Binding: SNOMEDCTBodyStructures (example): SNOMED CT Body site concepts
fastingStatus[x]	Σ	0..1		Whether or how long patient abstained from food and/or drink Binding: hl7VS-relevantClincialInformation (extensible): Codes describing the fasting status of the patient.
fastingStatusCodeableConcept			CodeableConcept
fastingStatusDuration			Duration
processing		1..1	BackboneElement	Processing and processing step details
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
description		0..1	string	Textual description of procedure
method		1..1	SGHICodeableConcept	Indicates the treatment step applied to the specimen Binding: Specimen Type Value Sets (required)
additive		0..*	SGHIReference(Substance)	Material used in the processing step
time[x]		0..1		Date and time of specimen processing
timeDateTime			dateTime
timePeriod			Period
container		0..*	BackboneElement	Direct container of specimen (tube/slide, etc.)
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
device		1..1	Reference(Device)	Device resource for the container
location		0..1	Reference(Location)	Where the container is
specimenQuantity		0..1	SimpleQuantity(5.0.0)	Quantity of specimen within container
condition	Σ	0..*	CodeableConcept	State of the specimen Binding: hl7VS-specimenCondition (extensible): Codes describing the state of the specimen.
note		0..*	Annotation	Comments
Documentation for this format

Terminology Bindings

Path	Conformance	ValueSet	URI
Specimen.language	required	AllLanguages http://hl7.org/fhir/ValueSet/all-languages|5.0.0 From the FHIR Standard
Specimen.identifier.use	required	IdentifierUse http://hl7.org/fhir/ValueSet/identifier-use From the FHIR Standard
Specimen.identifier.type	required	SGHIIdentifierTypes https://fhir.slade360.co.ke/fhir/ValueSet/sghi-identifier-types From this IG
Specimen.status	required	SpecimenStatus http://hl7.org/fhir/ValueSet/specimen-status|5.0.0 From the FHIR Standard
Specimen.type	example	Hl7VSSpecimenType http://terminology.hl7.org/ValueSet/v2-0487
Specimen.combined	required	SpecimenCombined http://hl7.org/fhir/ValueSet/specimen-combined|5.0.0 From the FHIR Standard
Specimen.role	preferred	SpecimenRole http://hl7.org/fhir/ValueSet/specimen-role|5.0.0 From the FHIR Standard
Specimen.feature.type	example	SNOMEDCTBodyStructures http://hl7.org/fhir/ValueSet/body-site|5.0.0 From the FHIR Standard
Specimen.collection.method	example	FHIRSpecimenCollectionMethod http://hl7.org/fhir/ValueSet/specimen-collection-method|5.0.0 From the FHIR Standard
Specimen.collection.device	example
Specimen.collection.bodySite	example	SNOMEDCTBodyStructures http://hl7.org/fhir/ValueSet/body-site|5.0.0 From the FHIR Standard
Specimen.collection.fastingStatus[x]	extensible	Hl7VSRelevantClincialInformation http://terminology.hl7.org/ValueSet/v2-0916
Specimen.processing.method	required	SGHISpecimenTypeVs https://fhir.slade360.co.ke/fhir/ValueSet/sghi-specimentype From this IG
Specimen.condition	extensible	Hl7VSSpecimenCondition http://terminology.hl7.org/ValueSet/v2-0493

Constraints

Id	Grade	Path(s)	Details	Requirements
dom-2	error	Specimen	If the resource is contained in another resource, it SHALL NOT contain nested Resources : contained.contained.empty()
dom-3	error	Specimen	If the resource is contained in another resource, it SHALL be referred to from elsewhere in the resource or SHALL refer to the containing resource : contained.where((('#'+id in (%resource.descendants().reference | %resource.descendants().ofType(canonical) | %resource.descendants().ofType(uri) | %resource.descendants().ofType(url))) or descendants().where(reference = '#').exists() or descendants().where(ofType(canonical) = '#').exists() or descendants().where(ofType(canonical) = '#').exists()).not()).trace('unmatched', id).empty()
dom-4	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a meta.versionId or a meta.lastUpdated : contained.meta.versionId.empty() and contained.meta.lastUpdated.empty()
dom-5	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a security label : contained.meta.security.empty()
dom-6	best practice	Specimen	A resource should have narrative for robust management : text.`div`.exists()
ele-1	error	**ALL** elements	All FHIR elements must have a @value or children : hasValue() or (children().count() > id.count())
ext-1	error	**ALL** extensions	Must have either extensions or value[x], not both : extension.exists() != value.exists()

This structure is derived from Specimen

Summary

Mandatory: 13 elements

Structures

This structure refers to these other structures:

• SGHI CodeableConcept (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-codeableconcept)
• SGHI Reference (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-reference)
• SGHI Organization (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-organization)
• SGHI Patient (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-patient)
• SGHI Practitioner (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-practitioner)

Key Elements View

Name	Flags	Card.	Type	Description & Constraints    Filter: Bindings Constraints Obligations
Specimen		0..*	Specimen	Sample for analysis
implicitRules	?!Σ	0..1	uri	A set of rules under which this content was created
contained		0..*	Resource	Contained, inline Resources
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored
identifier	Σ	1..*	Identifier	External Identifier
use	?!Σ	0..1	code	usual | official | temp | secondary | old (If known) Binding: IdentifierUse (required)
type	Σ	0..1	SGHICodeableConcept	Description of identifier Binding: SGHI Standard Identifier Types (required)
system	Σ	1..1	uri	The namespace for the identifier value Example General: http://www.acme.com/identifiers/patient
value	ΣC	1..1	string	The value that is unique Example General: 123456
assigner	Σ	1..1	SGHIReference(SGHI Organization)	Organization that issued id (may be just text)
accessionIdentifier	Σ	1..1	Identifier	Identifier assigned by the lab
status	?!Σ	1..1	code	available | unavailable | unsatisfactory | entered-in-error Binding: SpecimenStatus (required): Codes providing the status/availability of a specimen.
subject	Σ	1..1	SGHIReference(SGHI Patient)	Where the specimen came from. This may be from patient(s), from a location (e.g., the source of an environmental sample), or a sampling of a substance, a biologically-derived product, or a device
receivedTime	Σ	1..1	dateTime	The time when specimen is received by the testing laboratory
role		1..*	SGHICodeableConcept	The role the specimen serves Binding: SpecimenRole (preferred): Codes describing specimen role.
collection		1..1	BackboneElement	Collection details
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
collector	Σ	0..1	SGHIReference(SGHI Practitioner)	Who collected the specimen
collected[x]	Σ	1..1		Collection time
collectedDateTime			dateTime
collectedPeriod			Period
processing		1..1	BackboneElement	Processing and processing step details
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
method		1..1	SGHICodeableConcept	Indicates the treatment step applied to the specimen Binding: Specimen Type Value Sets (required)
additive		0..*	SGHIReference(Substance)	Material used in the processing step
Documentation for this format

Terminology Bindings

Path	Conformance	ValueSet	URI
Specimen.identifier.use	required	IdentifierUse http://hl7.org/fhir/ValueSet/identifier-use From the FHIR Standard
Specimen.identifier.type	required	SGHIIdentifierTypes https://fhir.slade360.co.ke/fhir/ValueSet/sghi-identifier-types From this IG
Specimen.status	required	SpecimenStatus http://hl7.org/fhir/ValueSet/specimen-status|5.0.0 From the FHIR Standard
Specimen.role	preferred	SpecimenRole http://hl7.org/fhir/ValueSet/specimen-role|5.0.0 From the FHIR Standard
Specimen.processing.method	required	SGHISpecimenTypeVs https://fhir.slade360.co.ke/fhir/ValueSet/sghi-specimentype From this IG

Constraints

Id	Grade	Path(s)	Details	Requirements
dom-2	error	Specimen	If the resource is contained in another resource, it SHALL NOT contain nested Resources : contained.contained.empty()
dom-3	error	Specimen	If the resource is contained in another resource, it SHALL be referred to from elsewhere in the resource or SHALL refer to the containing resource : contained.where((('#'+id in (%resource.descendants().reference | %resource.descendants().ofType(canonical) | %resource.descendants().ofType(uri) | %resource.descendants().ofType(url))) or descendants().where(reference = '#').exists() or descendants().where(ofType(canonical) = '#').exists() or descendants().where(ofType(canonical) = '#').exists()).not()).trace('unmatched', id).empty()
dom-4	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a meta.versionId or a meta.lastUpdated : contained.meta.versionId.empty() and contained.meta.lastUpdated.empty()
dom-5	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a security label : contained.meta.security.empty()
dom-6	best practice	Specimen	A resource should have narrative for robust management : text.`div`.exists()
ele-1	error	**ALL** elements	All FHIR elements must have a @value or children : hasValue() or (children().count() > id.count())
ext-1	error	**ALL** extensions	Must have either extensions or value[x], not both : extension.exists() != value.exists()

Differential View

This structure is derived from Specimen

Name	Flags	Card.	Type	Description & Constraints    Filter: Bindings Constraints Obligations
Specimen		0..*	Specimen	Sample for analysis
identifier		1..*	Identifier	External Identifier
use		0..1	code	usual | official | temp | secondary | old (If known) Binding: IdentifierUse (required)
type		0..1	SGHICodeableConcept	Description of identifier Binding: SGHI Standard Identifier Types (required)
system		1..1	uri	The namespace for the identifier value
value		1..1	string	The value that is unique
assigner		1..1	SGHIReference(SGHI Organization)	Organization that issued id (may be just text)
accessionIdentifier		1..1	Identifier	Identifier assigned by the lab
status		1..1	code	available | unavailable | unsatisfactory | entered-in-error
subject		1..1	SGHIReference(SGHI Patient)	Where the specimen came from. This may be from patient(s), from a location (e.g., the source of an environmental sample), or a sampling of a substance, a biologically-derived product, or a device
receivedTime		1..1	dateTime	The time when specimen is received by the testing laboratory
role		1..*	SGHICodeableConcept	The role the specimen serves
collection		1..1	BackboneElement	Collection details
collector		0..1	SGHIReference(SGHI Practitioner)	Who collected the specimen
collected[x]		1..1	dateTime, Period	Collection time
processing		1..1	BackboneElement	Processing and processing step details
method		1..1	SGHICodeableConcept	Indicates the treatment step applied to the specimen Binding: Specimen Type Value Sets (required)
additive		0..*	SGHIReference(Substance)	Material used in the processing step
Documentation for this format

Terminology Bindings (Differential)

Path	Conformance	ValueSet	URI
Specimen.identifier.use	required	IdentifierUse http://hl7.org/fhir/ValueSet/identifier-use From the FHIR Standard
Specimen.identifier.type	required	SGHIIdentifierTypes https://fhir.slade360.co.ke/fhir/ValueSet/sghi-identifier-types From this IG
Specimen.processing.method	required	SGHISpecimenTypeVs https://fhir.slade360.co.ke/fhir/ValueSet/sghi-specimentype From this IG

Snapshot View

Name	Flags	Card.	Type	Description & Constraints    Filter: Bindings Constraints Obligations
Specimen		0..*	Specimen	Sample for analysis
id	Σ	0..1	id	Logical id of this artifact
meta	Σ	0..1	Meta	Metadata about the resource
implicitRules	?!Σ	0..1	uri	A set of rules under which this content was created
language		0..1	code	Language of the resource content Binding: AllLanguages (required): IETF language tag for a human language Additional Bindings Purpose CommonLanguages Starter
text		0..1	Narrative	Text summary of the resource, for human interpretation This profile does not constrain the narrative in regard to content, language, or traceability to data elements
contained		0..*	Resource	Contained, inline Resources
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored
identifier	Σ	1..*	Identifier	External Identifier
id		0..1	id	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations Slice: Unordered, Open by value:url
use	?!Σ	0..1	code	usual | official | temp | secondary | old (If known) Binding: IdentifierUse (required)
type	Σ	0..1	SGHICodeableConcept	Description of identifier Binding: SGHI Standard Identifier Types (required)
system	Σ	1..1	uri	The namespace for the identifier value Example General: http://www.acme.com/identifiers/patient
value	ΣC	1..1	string	The value that is unique Example General: 123456
period	Σ	0..1	Period	Time period when id is/was valid for use
assigner	Σ	1..1	SGHIReference(SGHI Organization)	Organization that issued id (may be just text)
accessionIdentifier	Σ	1..1	Identifier	Identifier assigned by the lab
status	?!Σ	1..1	code	available | unavailable | unsatisfactory | entered-in-error Binding: SpecimenStatus (required): Codes providing the status/availability of a specimen.
type	Σ	0..1	CodeableConcept	Kind of material that forms the specimen Binding: hl7VS-specimenType (example): The type of the specimen.
subject	Σ	1..1	SGHIReference(SGHI Patient)	Where the specimen came from. This may be from patient(s), from a location (e.g., the source of an environmental sample), or a sampling of a substance, a biologically-derived product, or a device
receivedTime	Σ	1..1	dateTime	The time when specimen is received by the testing laboratory
parent		0..*	Reference(Specimen)	Specimen from which this specimen originated
request		0..*	Reference(ServiceRequest)	Why the specimen was collected
combined	Σ	0..1	code	grouped | pooled Binding: SpecimenCombined (required): Codes for the combined status of a specimen.
role		1..*	SGHICodeableConcept	The role the specimen serves Binding: SpecimenRole (preferred): Codes describing specimen role.
feature		0..*	BackboneElement	The physical feature of a specimen
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
type		1..1	CodeableConcept	Highlighted feature Binding: SNOMEDCTBodyStructures (example): SNOMED CT Body site concepts
description		1..1	string	Information about the feature
collection		1..1	BackboneElement	Collection details
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
collector	Σ	0..1	SGHIReference(SGHI Practitioner)	Who collected the specimen
collected[x]	Σ	1..1		Collection time
collectedDateTime			dateTime
collectedPeriod			Period
duration	Σ	0..1	Duration	How long it took to collect specimen
quantity		0..1	SimpleQuantity(5.0.0)	The quantity of specimen collected
method		0..1	CodeableConcept	Technique used to perform collection Binding: FHIRSpecimenCollectionMethod (example): The technique that is used to perform the procedure.
device		0..1	CodeableReference(Device)	Device used to perform collection Binding Description: (example): The device that was used to obtain the specimen (e.g. a catheter or catheter part used to draw the blood via a central line).
procedure		0..1	Reference(Procedure)	The procedure that collects the specimen
bodySite		0..1	CodeableReference(BodyStructure)	Anatomical collection site Binding: SNOMEDCTBodyStructures (example): SNOMED CT Body site concepts
fastingStatus[x]	Σ	0..1		Whether or how long patient abstained from food and/or drink Binding: hl7VS-relevantClincialInformation (extensible): Codes describing the fasting status of the patient.
fastingStatusCodeableConcept			CodeableConcept
fastingStatusDuration			Duration
processing		1..1	BackboneElement	Processing and processing step details
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
description		0..1	string	Textual description of procedure
method		1..1	SGHICodeableConcept	Indicates the treatment step applied to the specimen Binding: Specimen Type Value Sets (required)
additive		0..*	SGHIReference(Substance)	Material used in the processing step
time[x]		0..1		Date and time of specimen processing
timeDateTime			dateTime
timePeriod			Period
container		0..*	BackboneElement	Direct container of specimen (tube/slide, etc.)
id		0..1	string	Unique id for inter-element referencing
extension		0..*	Extension	Additional content defined by implementations
modifierExtension	?!Σ	0..*	Extension	Extensions that cannot be ignored even if unrecognized
device		1..1	Reference(Device)	Device resource for the container
location		0..1	Reference(Location)	Where the container is
specimenQuantity		0..1	SimpleQuantity(5.0.0)	Quantity of specimen within container
condition	Σ	0..*	CodeableConcept	State of the specimen Binding: hl7VS-specimenCondition (extensible): Codes describing the state of the specimen.
note		0..*	Annotation	Comments
Documentation for this format

Terminology Bindings

Path	Conformance	ValueSet	URI
Specimen.language	required	AllLanguages http://hl7.org/fhir/ValueSet/all-languages|5.0.0 From the FHIR Standard
Specimen.identifier.use	required	IdentifierUse http://hl7.org/fhir/ValueSet/identifier-use From the FHIR Standard
Specimen.identifier.type	required	SGHIIdentifierTypes https://fhir.slade360.co.ke/fhir/ValueSet/sghi-identifier-types From this IG
Specimen.status	required	SpecimenStatus http://hl7.org/fhir/ValueSet/specimen-status|5.0.0 From the FHIR Standard
Specimen.type	example	Hl7VSSpecimenType http://terminology.hl7.org/ValueSet/v2-0487
Specimen.combined	required	SpecimenCombined http://hl7.org/fhir/ValueSet/specimen-combined|5.0.0 From the FHIR Standard
Specimen.role	preferred	SpecimenRole http://hl7.org/fhir/ValueSet/specimen-role|5.0.0 From the FHIR Standard
Specimen.feature.type	example	SNOMEDCTBodyStructures http://hl7.org/fhir/ValueSet/body-site|5.0.0 From the FHIR Standard
Specimen.collection.method	example	FHIRSpecimenCollectionMethod http://hl7.org/fhir/ValueSet/specimen-collection-method|5.0.0 From the FHIR Standard
Specimen.collection.device	example
Specimen.collection.bodySite	example	SNOMEDCTBodyStructures http://hl7.org/fhir/ValueSet/body-site|5.0.0 From the FHIR Standard
Specimen.collection.fastingStatus[x]	extensible	Hl7VSRelevantClincialInformation http://terminology.hl7.org/ValueSet/v2-0916
Specimen.processing.method	required	SGHISpecimenTypeVs https://fhir.slade360.co.ke/fhir/ValueSet/sghi-specimentype From this IG
Specimen.condition	extensible	Hl7VSSpecimenCondition http://terminology.hl7.org/ValueSet/v2-0493

Constraints

Id	Grade	Path(s)	Details	Requirements
dom-2	error	Specimen	If the resource is contained in another resource, it SHALL NOT contain nested Resources : contained.contained.empty()
dom-3	error	Specimen	If the resource is contained in another resource, it SHALL be referred to from elsewhere in the resource or SHALL refer to the containing resource : contained.where((('#'+id in (%resource.descendants().reference | %resource.descendants().ofType(canonical) | %resource.descendants().ofType(uri) | %resource.descendants().ofType(url))) or descendants().where(reference = '#').exists() or descendants().where(ofType(canonical) = '#').exists() or descendants().where(ofType(canonical) = '#').exists()).not()).trace('unmatched', id).empty()
dom-4	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a meta.versionId or a meta.lastUpdated : contained.meta.versionId.empty() and contained.meta.lastUpdated.empty()
dom-5	error	Specimen	If a resource is contained in another resource, it SHALL NOT have a security label : contained.meta.security.empty()
dom-6	best practice	Specimen	A resource should have narrative for robust management : text.`div`.exists()
ele-1	error	**ALL** elements	All FHIR elements must have a @value or children : hasValue() or (children().count() > id.count())
ext-1	error	**ALL** extensions	Must have either extensions or value[x], not both : extension.exists() != value.exists()

This structure is derived from Specimen

Summary

Mandatory: 13 elements

Structures

This structure refers to these other structures:

• SGHI CodeableConcept (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-codeableconcept)
• SGHI Reference (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-reference)
• SGHI Organization (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-organization)
• SGHI Patient (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-patient)
• SGHI Practitioner (https://fhir.slade360.co.ke/fhir/StructureDefinition/sghi-practitioner)

Other representations of profile: CSV, Excel, Schematron