ARCHETYPE Specimen (openEHR-EHR-CLUSTER.specimen.v1)

ARCHETYPE IDopenEHR-EHR-CLUSTER.specimen.v1
ConceptSpecimen
DescriptionA physical sample collected from, or related to, an individual for the purpose of investigation, examination or analysis.
UseUse to record details about a physical sample collected from, or related to, an individual for the purpose of investigation, examination or analysis. This archetype has been specifically designed to be used in the following use cases: - within INSTRUCTION.service_request or another laboratory-related INSTRUCTION archetype to describe a specimen that is to be collected, or to describe a specimen that accompanies a laboratory service request; - within a laboratory-related ACTION archetype to describe specimen collection or a specimen that has been collected; or - within OBSERVATION.laboratory_test_result or other laboratory reporting OBSERVATION archetypes to describe the specimen being reported. In addition this archetype can also be nested within other ENTRY or CLUSTER archetypes, where clinically appropriate. The level of detail in this archetype is likely to exceed that currently collected in most laboratories. It has deliberately been designed to cater for a simple, single specimen collection; simultaneous collection of multiple specimens with a single request; and complex situations where it is required to record minute detail about the preparation and subdivision of a single specimen. The exact semantics of several elements of this archetype may change based on the context provided by the parent archetype in which it is nested. For example, the 'Collection method' element in the context of an INSTRUCTION archetype is the requested collection method, while the same element in the context of an ACTION archetype in the 'completed' state is the actual collection method. Other complementary archetypes will carry the detail about 'Specimen container', 'Specimen preparation', and 'Specimen transport'. This archetype has been designed to be used with the Specimen container archetype in two main ways: - 'Specimen container' nested within 'Specimen' (for example when a venous blood specimen is divided between two vials, or a whole large intestine is divided into three buckets); or - 'Specimen' nested within 'Specimen container' (for example when a bucket of formalin contains a section of large intestine and a rectum, or a jar contains five individually marked moles). Please note: The term 'collection' used in this archetype always refers to the activity of obtaining a specimen from an individual. It is not intended to represent the transport of the specimen from the individual to the testing laboratory.
MisuseNot intended to be used for recording information about specimens that are not related to a specific individual. For example routine water samples from a waterworks, or spot samples from food production facilities.
PurposeTo record details about a physical sample collected from, or related to, an individual for the purpose of investigation, examination or analysis.
ReferencesHL7 FHIR Resource - Specimen R4.0.1 [Internet]. Health Level Seven; [accessed 2020 Jan 17]. Available from: http://www.hl7.org/implement/standards/fhir/specimen.html <http://www.hl7.org/implement/standards/fhir/specimen.html> .

Laboratory Technical Framework, Volume 3: Content, Revision 10 [Internet]. USA: IHE International; 2019 Aug 20; [cited 2020 Mar 9]. Available from: https://www.ihe.net/uploadedFiles/Documents/PaLM/IHE_PaLM_TF_Vol3.pdf <https://www.ihe.net/uploadedFiles/Documents/PaLM/IHE_PaLM_TF_Vol3.pdf>
Copyright© openEHR Foundation
AuthorsAuthor name: Dr Ian McNicoll
Organisation: freshEHR Clinical Informatics
Email: ian.mcnicoll@oceaninformatics.com
Date originally authored: 2009-01-27
Other Details LanguageAuthor name: Dr Ian McNicoll
Organisation: freshEHR Clinical Informatics
Email: ian.mcnicoll@oceaninformatics.com
Date originally authored: 2009-01-27
OtherDetails Language Independent{licence=This work is licensed under the Creative Commons Attribution-ShareAlike 3.0 License. To view a copy of this license, visit http://creativecommons.org/licenses/by-sa/3.0/., custodian_organisation=openEHR Foundation, references=HL7 FHIR Resource - Specimen R4.0.1 [Internet]. Health Level Seven; [accessed 2020 Jan 17]. Available from: http://www.hl7.org/implement/standards/fhir/specimen.html . Laboratory Technical Framework, Volume 3: Content, Revision 10 [Internet]. USA: IHE International; 2019 Aug 20; [cited 2020 Mar 9]. Available from: https://www.ihe.net/uploadedFiles/Documents/PaLM/IHE_PaLM_TF_Vol3.pdf , original_namespace=org.openehr, original_publisher=openEHR Foundation, custodian_namespace=org.openehr, MD5-CAM-1.0.1=387596AF709CE27D623064209E998D45, build_uid=e06d3380-4a6b-4e72-b663-45bbfbc1a4e2, revision=1.0.1}
Keywordsspecimen, laboratory, sample, collection, sampling, biopsy, tissue, cytology, microbiology, pathology, histopathology, histology, lab, fluid, smear, blood, exudate, serum, plasma, urine, saliva, secretion, synovial, lymph, feces, faeces, fæces, ascites, expectorate, swab, breast milk, pus, drain fluid, bone marrow, culture, scraping, aspirate, phlebotomy, test, cerebrospinal fluid, pleural fluid
Lifecyclepublished
UID4f4d5daf-b6b7-475f-ae49-66b3c5003e6f
Language useden
Citeable Identifier1246.145.748
Revision Number1.0.1
AllArchetype [runtimeNameConstraintForConceptName=null, archetypeConceptBinding=null, archetypeConceptDescription=A physical sample collected from, or related to, an individual for the purpose of investigation, examination or analysis., archetypeConceptComment=For example: Tissue or body fluid., otherContributors=Marit Alice Venheim, Helse Vest IKT, Norway
Erling Are Hole, Helse Bergen, Norway
Vebjørn Arntzen, Oslo University Hospital, Norway (openEHR Editor)
Koray Atalag, University of Auckland, New Zealand
Heidi Aursand, Oslo universitetssykehus, Norway
Silje Ljosland Bakke, Helse Vest IKT AS, Norway (openEHR Editor)
SB Bhattacharyya, Sudisa Consultancy Services, India
Greg Burch, Tiny Medical Apps, United Kingdom
Ady Angelica Castro Acosta, CIBERES-Hospital 12 de Octubre, Spain
Peter Fedorcsak, Oslo universitetssykehus, Norway
Shahla Foozonkhah, Iran ministry of health and education, Iran
Francesca Frexia, CRS4 - Center for advanced studies, research and development in Sardinia, Italy
Heather Grain, Llewelyn Grain Informatics, Australia
Åshild Halvorsen, Helse Nord RHF, Norway
Sam Heard, Ocean Informatics, Australia
Anca Heyd, DIPS AS, Norway
Evelyn Hovenga, EJSH Consulting, Australia
Morten Hørthe, DIPS AS, Norway
Lars Ivar Mehlum, Nasjonal IKT HF, Norway
Christina Jaeger-Schmidt, Heidelberg University Hospital, Germany
Lars Morgan Karlsen, DIPS ASA, Norway
Nils Kolstrup, Skansen Legekontor og Nasjonalt Senter for samhandling og telemedisin, Norway
Ronald Krawec, Alberta Health Services, Canada
Runar Kristiansen, DIPS AS, Norway
Tomi Laptoš, Marand, Slovenia
Siri Laronningen, Kreftregisteret, Norway
Liv Laugen, Oslo universitetssykehus, Norway
Sabine Leh, Helse Bergen, Norway
Heather Leslie, Atomica Informatics, Australia (openEHR Editor)
Jens Lien, Bouvet Norge AS, Norway
Neranga Liyanaarachchi, Ministry of Health, Postgraduate Institute of Medicine, Sri Lanka
Anne M Gromsrud, DIPS AS, Norway
Gunn Marit Barstad, Stavanger Universitetssykehus HF, Norway
Ole Martin Ryeng Sand, DIPS AS, Norway
Ole Martin Sand, DIPS ASA, Norway
Shane McKee, Belfast Health & Social Care Trust, United Kingdom
Ian McNicoll, freshEHR Clinical Informatics, United Kingdom (openEHR Editor)
John Meredith, NHS Wales Informatics Service, United Kingdom
Pourya Nasimi, Trita Health-tech Company, Iran
Arunakiry Natarajan, management4health, Germany
Gunnar Nordin, Equalis AB, Sweden
Bjørn Næss, DIPS ASA, Norway
Andrej Orel, Marand d.o.o., Slovenia
Jayashree Panickar, Karolinska Institute, Sweden
Ana Pereira, CINTESIS, CUF-Porto, Portugal
Nils Petter Tveranger, Helse Vest IKT, Norway
Niklas Reimer, Institut für Medizinische Informatik / Universität zu Lübeck, Germany
Jussara Rotzsch, Hospital Alemão Oswaldo Cruz, Brazil
Gro-Hilde Severinsen, Norwegian center for ehealthresearch, Norway
Ingrid Skard, Edproof, Norway
Lídia Sousa, CINTESIS; Faculty of Medicine of Oporto University, Portugal
Natalia Strauch, Medizinische Hochschule Hannover, Germany
German Review Summary, HiGHmed Germany, Germany
Norwegian Review Summary, Nasjonal IKT HF, Norway
Nyree Taylor, Ocean Informatics, Australia
Micaela Thierley, Helse Bergen/Haraldsplass sykehus, Norway
Rowan Thomas, St. Vincent's Hospital Melbourne, Australia
Anders Thurin, VGR, Sweden
John Tore Valand, Helse Bergen, Norway (openEHR Editor)
Ørjan Vermeer, Haukeland Universitetssjukehus, Kvinneklinikken, Norway
Marianne Wilhelmsen, HDS, Norway
Lin Zhang, Taikang Insurance Group, China
Enagnon ZOUNCTHEME, Aix Marseille Univerity, Benin, originalLanguage=en, translators=German: Sarah Ballout, Antje Wulff, MHH-Hannover, PLRI for Medical Informatics Medical School Hannover and TU Braunschweig, Ballout.Sarah@mh-hannover.de, wulff.antje@mh-hannover.de
Norwegian Bokmål: Kristian Berg, Gro-Hilde Ulriksen, Line Silsand, Silje Ljosland Bakke, Universitetssykehuset Nord-Norge, Helse Vest IKT AS, kristian.berg@unn.no, gro-hilde.ulriksen@unn.no, line.silsand@unn.no, silje.ljosland.bakke@helse-vest-ikt.no, *
Portuguese (Brazil): Adriana Kitajima, Débora Farage, Fernanda Maia, Laíse Figueiredo, Marivan Abrahão, Core Consulting, contato@coreconsulting.com.br, Hospital Alemão Oswaldo Cruz (HAOC)
Arabic (Syria): Mona Saleh
, subjectOfData=unconstrained, archetypeTranslationTree=null, topLevelToAshis={ism_transition=[], events=[], source=[], data=[], protocol=[], items=[ResourceSimplifiedHierarchyItem [path=/items[at0029], code=at0029, itemType=ELEMENT, level=1, text=Specimen type, description=The type of specimen., comment=For example: Venous blood, bacterial culture, cytology, or tissue sample. Coding of the specimen type with a terminology is preferred, where possible., uncommonOntologyItems={fhir_mapping=Specimen.type}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001], code=at0001, itemType=ELEMENT, level=1, text=Laboratory specimen identifier, description=A unique identifier of the specimen, normally assigned by the laboratory., comment=Sometimes called the Accession Identifier. Specimen containers, for example vacuum vials or tissue cassettes, have their own identitiers which may be recorded in the 'Container identifier' element in the 'Specimen container' archetype., uncommonOntologyItems={fhir_mapping=Specimen.accessionIdentifier}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0088], code=at0088, itemType=ELEMENT, level=1, text=External identifier, description=A unique identifier of the specimen, assigned by a party external to the laboratory., comment=For example: 'Requester ID', 'Archive ID, 'Biobank ID'., uncommonOntologyItems={fhir_mapping=Specimen.identifier}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0034], code=at0034, itemType=ELEMENT, level=1, text=Date/time received, description=The date and time that the sample was received at the laboratory., comment=null, uncommonOntologyItems={fhir_mapping=Specimen.receivedTime}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0008], code=at0008, itemType=ELEMENT, level=1, text=Sampling context, description=The context in which the specimen is collected., comment=For example: 'fasting'; 'full bladder'; 'sterile field'; or special instructions on the handling or immediate processing of the sample, such as 'centrifuge on receipt'. This data element also be used to document any known deviations from collection or handling instructions, for example that the patient had not fasted, even when this had been originally requested. Coding of the 'Sampling context' with a terminology is preferred, where possible. If this archetype is used within an INSTRUCTION archetype, the context will reflect the intended or desired conditions at sample collection. If this archetype is used for representing an ACTION archetype pathway step which correlates with the collection being performed or completed, the context will be reflecting the conditions that existed at sample collection and this may also be copied to the 'Confounding factors' element of the OBSERVATION.laboratory_test_result archetype., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0027], code=at0027, itemType=SLOT, level=1, text=Physical properties, description=Physical dimensions, mass or non-measurable properties of the specimen., comment=For example: Volume, mass, circumference, colour, smell, turbidity. This element can be used to specify the properties of the specimen to be collected, in the context of an INSTRUCTION archetype, or the properties of the specimen which was collected, in the context of an ACTION or OBSERVATION archetype. For example, an INSTRUCTION may request the collection of 20 ml of blood, while the corresponding ACTION records that only 15 ml was collected., uncommonOntologyItems={fhir_mapping=Specimen.collection.quantity}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.physical_properties.v1 and specialisations Or
openEHR-EHR-CLUSTER.physical_properties.v0 and specialisations Or
openEHR-EHR-CLUSTER.body_fluid.v0 and specialisations Or
openEHR-EHR-CLUSTER.body_fluid.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0007], code=at0007, itemType=ELEMENT, level=1, text=Collection method, description=The method of collection used., comment=For example: venepuncture, biopsy, resection. Coding of the collection method with a terminology is preferred, where possible. If the collection method is included in the 'Specimen type' via precoordinated codes, this data element becomes redundant., uncommonOntologyItems={fhir_mapping=Specimen.collection.method}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0079], code=at0079, itemType=ELEMENT, level=1, text=Collection description, description=Narrative description about the collection of the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0087], code=at0087, itemType=ELEMENT, level=1, text=Source site, description=Identification of the body site or other location from where the specimen is collected., comment=For example: 'wound on left calf', 'IV cannula right arm', 'right kidney'. Coding of the name of the source site with a terminology is preferred, where possible. Use this data element to record precoordinated source sites. If the requirements for recording the source site are determined at run-time by the application or require more complex modelling such as relative locations then use the 'Structured source site' SLOT in this archetype. If the source site is included in the 'Specimen type' via precoordinated codes, this data element becomes redundant., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0013], code=at0013, itemType=SLOT, level=1, text=Structured source site, description=A structured description of the area of the body from where the specimen is collected., comment=Utilise the more detailed archetypes to describe structured or more complex anatomical sites, or to support recording the source site at run-time by the application. If the body site has been fully identified in the 'Source site' data element, this SLOT becomes redundant., uncommonOntologyItems={fhir_mapping=Specimen.collection.sourceSite}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.anatomical_location.v1 and specialisations Or
openEHR-EHR-CLUSTER.anatomical_location_relative.v1 and specialisations Or
openEHR-EHR-CLUSTER.anatomical_location_circle.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0015], code=at0015, itemType=ELEMENT, level=1, text=Collection date/time, description=The date and time that collection has been ordered to take place or has taken place., comment=This datetime will be captured primarily in the INSTRUCTION timing, ACTION time or OBSERVATION times. However, as this is a critical piece of information, it can be useful to also associate it directly with the specimen itself., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Date/Time
  •  Interval of Date/Time


, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0005], code=at0005, itemType=ELEMENT, level=1, text=Hazard warning, description=Identified health risk or biohazard to the collector or laboratory staff due to exposure to, or contact with, the specimen., comment=For example: 'Hepatitis B'; "nerve agent'. Coding of the 'Hazard warning' with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0067], code=at0067, itemType=ELEMENT, level=1, text=Collection setting, description=Identification of the physical setting in which the specimen is collected., comment=For example: laboratory outpatient clinic, at home, or hospital ward. This specifies the type of specimen collection location within the healthcare environment. The specimen collection setting may provide additional information relevant to the analysis of the result., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0070], code=at0070, itemType=ELEMENT, level=1, text=Specimen collector identifier, description=Identifier of the person or organisation responsible for collecting the specimen., comment=This element is intended to be used where the specimen has already been collected and the actual collector is known., uncommonOntologyItems={fhir_mapping=Specimen.collection.collector}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0071], code=at0071, itemType=SLOT, level=1, text=Specimen collector details, description=The person or organisation responsible for collecting the specimen., comment=null, uncommonOntologyItems={fhir_mapping=Specimen.collection.collector}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
All not explicitly excluded archetypes, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0083], code=at0083, itemType=SLOT, level=1, text=Additional collection details, description=Addtional details related to specific collection methods., comment=For example details about needle biopsies in prostate cancer, where both the request and reporting about the specimen are detailed and specific., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
All not explicitly excluded archetypes, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0080], code=at0080, itemType=ELEMENT, level=1, text=Number of containers, description=The total number of physical units holding this specimen., comment=For example: Number of buckets, jars, vials, tubes, blocks, slides or grids., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_COUNT, bindings=null, values=min: >=0

, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0085], code=at0085, itemType=SLOT, level=1, text=Container details, description=Details about containers used., comment=null, uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_container.v0 and specialisations Or
openEHR-EHR-CLUSTER.specimen_container.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0068], code=at0068, itemType=SLOT, level=1, text=Processing details, description=Structured details about preparation or processing of the specimen., comment=For example: Staining or fixation., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_preparation.v1 and specialisations Or
openEHR-EHR-CLUSTER.specimen_preparation.v0 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0093], code=at0093, itemType=SLOT, level=1, text=Transport details, description=Structured details about transport of the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_transport.v0 and specialisations Or
openEHR-EHR-CLUSTER.specimen_transport.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0096], code=at0096, itemType=SLOT, level=1, text=Digital representation, description=Structured details about a digital representation of the specimen., comment=For example the scanned image of a histopathology slide., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.multimedia.v1 and specialisations Or
openEHR-EHR-CLUSTER.multimedia.v0 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0003], code=at0003, itemType=ELEMENT, level=1, text=Parent specimen identifier, description=Unique identifier of the parent specimen, where the specimen is split into sub-samples., comment=For example: A specific histology slide specimen can have a specific paraffin wax block as its parent specimen., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0042], code=at0042, itemType=ELEMENT, level=1, text=Specimen quality issue, description=A specific quality issue with a specimen., comment=Coding of the specimen quality issues with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Coded Text
    • Haemolysed [The specimen was haemolysed.]
    • Lipaemic [The specimen was lipaemic.]
    • Icteric [The specimen was icteric.]
    • Clotted [The specimen was clotted.]
    • Incorrect additive [An incorrect additive such as a transport medium or preservative was added to the specimen.]
    • Insufficient amount [The available amount of specimen was insufficient to undertake the examination.]
    • Handling error [An error arose when handling the specimen. For example: Incorrect storage, broken container.]
    • Incorrectly labelled [The specimen was labelled incorrectly.]
    • Age [The specimen was too old to analyse or to analyse accurately.]
    • Technical failure [The specimen could not be analysed for technical reasons.]
  •  Text
, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0041], code=at0041, itemType=ELEMENT, level=1, text=Adequacy for testing, description=Information about whether the specimen was adequate for testing., comment=This element is intended to be used to record a judgement about whether or not the specimen quality was good enough for testing, and whether or not testing has been carried out. Coding of the specimen quality issues with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Coded Text
    • Satisfactory [The specimen is of sufficient quality to allow reporting.]
    • Unsatisfactory - analysed [The specimen is unsatisfactory but has been analysed.]
    • Unsatisfactory - not analysed [The specimen is unsatisfactory and has not been analysed.]
  •  Text
, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0045], code=at0045, itemType=ELEMENT, level=1, text=Comment, description=Additional narrative about the specimen not captured in other fields., comment=null, uncommonOntologyItems={fhir_mapping=Specimen.note}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null]], credentials=[], identities=[], activities=[], content=[], state=[], description=[], contacts=[], details=[], relationships=[], provider=[], context=[], target=[], capabilities=[], other_participations=[]}, topLevelItems={items=ResourceSimplifiedHierarchyItem [path=ROOT_/, code=at0000, itemType=CLUSTER, level=0, text=null, description=null, comment=null, uncommonOntologyItems=null, occurencesFormal=1..1, occurencesText=Mandatory, cardinalityFormal=1..*, cardinalityText=, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=null, extendedValues=null]}, addHierarchyItemsTo=items, currentHierarchyItemsForAdding=[ResourceSimplifiedHierarchyItem [path=/items[at0029], code=at0029, itemType=ELEMENT, level=1, text=Specimen type, description=The type of specimen., comment=For example: Venous blood, bacterial culture, cytology, or tissue sample. Coding of the specimen type with a terminology is preferred, where possible., uncommonOntologyItems={fhir_mapping=Specimen.type}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001], code=at0001, itemType=ELEMENT, level=1, text=Laboratory specimen identifier, description=A unique identifier of the specimen, normally assigned by the laboratory., comment=Sometimes called the Accession Identifier. Specimen containers, for example vacuum vials or tissue cassettes, have their own identitiers which may be recorded in the 'Container identifier' element in the 'Specimen container' archetype., uncommonOntologyItems={fhir_mapping=Specimen.accessionIdentifier}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0088], code=at0088, itemType=ELEMENT, level=1, text=External identifier, description=A unique identifier of the specimen, assigned by a party external to the laboratory., comment=For example: 'Requester ID', 'Archive ID, 'Biobank ID'., uncommonOntologyItems={fhir_mapping=Specimen.identifier}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0034], code=at0034, itemType=ELEMENT, level=1, text=Date/time received, description=The date and time that the sample was received at the laboratory., comment=null, uncommonOntologyItems={fhir_mapping=Specimen.receivedTime}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0008], code=at0008, itemType=ELEMENT, level=1, text=Sampling context, description=The context in which the specimen is collected., comment=For example: 'fasting'; 'full bladder'; 'sterile field'; or special instructions on the handling or immediate processing of the sample, such as 'centrifuge on receipt'. This data element also be used to document any known deviations from collection or handling instructions, for example that the patient had not fasted, even when this had been originally requested. Coding of the 'Sampling context' with a terminology is preferred, where possible. If this archetype is used within an INSTRUCTION archetype, the context will reflect the intended or desired conditions at sample collection. If this archetype is used for representing an ACTION archetype pathway step which correlates with the collection being performed or completed, the context will be reflecting the conditions that existed at sample collection and this may also be copied to the 'Confounding factors' element of the OBSERVATION.laboratory_test_result archetype., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0027], code=at0027, itemType=SLOT, level=1, text=Physical properties, description=Physical dimensions, mass or non-measurable properties of the specimen., comment=For example: Volume, mass, circumference, colour, smell, turbidity. This element can be used to specify the properties of the specimen to be collected, in the context of an INSTRUCTION archetype, or the properties of the specimen which was collected, in the context of an ACTION or OBSERVATION archetype. For example, an INSTRUCTION may request the collection of 20 ml of blood, while the corresponding ACTION records that only 15 ml was collected., uncommonOntologyItems={fhir_mapping=Specimen.collection.quantity}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.physical_properties.v1 and specialisations Or
openEHR-EHR-CLUSTER.physical_properties.v0 and specialisations Or
openEHR-EHR-CLUSTER.body_fluid.v0 and specialisations Or
openEHR-EHR-CLUSTER.body_fluid.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0007], code=at0007, itemType=ELEMENT, level=1, text=Collection method, description=The method of collection used., comment=For example: venepuncture, biopsy, resection. Coding of the collection method with a terminology is preferred, where possible. If the collection method is included in the 'Specimen type' via precoordinated codes, this data element becomes redundant., uncommonOntologyItems={fhir_mapping=Specimen.collection.method}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0079], code=at0079, itemType=ELEMENT, level=1, text=Collection description, description=Narrative description about the collection of the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0087], code=at0087, itemType=ELEMENT, level=1, text=Source site, description=Identification of the body site or other location from where the specimen is collected., comment=For example: 'wound on left calf', 'IV cannula right arm', 'right kidney'. Coding of the name of the source site with a terminology is preferred, where possible. Use this data element to record precoordinated source sites. If the requirements for recording the source site are determined at run-time by the application or require more complex modelling such as relative locations then use the 'Structured source site' SLOT in this archetype. If the source site is included in the 'Specimen type' via precoordinated codes, this data element becomes redundant., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0013], code=at0013, itemType=SLOT, level=1, text=Structured source site, description=A structured description of the area of the body from where the specimen is collected., comment=Utilise the more detailed archetypes to describe structured or more complex anatomical sites, or to support recording the source site at run-time by the application. If the body site has been fully identified in the 'Source site' data element, this SLOT becomes redundant., uncommonOntologyItems={fhir_mapping=Specimen.collection.sourceSite}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.anatomical_location.v1 and specialisations Or
openEHR-EHR-CLUSTER.anatomical_location_relative.v1 and specialisations Or
openEHR-EHR-CLUSTER.anatomical_location_circle.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0015], code=at0015, itemType=ELEMENT, level=1, text=Collection date/time, description=The date and time that collection has been ordered to take place or has taken place., comment=This datetime will be captured primarily in the INSTRUCTION timing, ACTION time or OBSERVATION times. However, as this is a critical piece of information, it can be useful to also associate it directly with the specimen itself., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Date/Time
  •  Interval of Date/Time


, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0005], code=at0005, itemType=ELEMENT, level=1, text=Hazard warning, description=Identified health risk or biohazard to the collector or laboratory staff due to exposure to, or contact with, the specimen., comment=For example: 'Hepatitis B'; "nerve agent'. Coding of the 'Hazard warning' with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0067], code=at0067, itemType=ELEMENT, level=1, text=Collection setting, description=Identification of the physical setting in which the specimen is collected., comment=For example: laboratory outpatient clinic, at home, or hospital ward. This specifies the type of specimen collection location within the healthcare environment. The specimen collection setting may provide additional information relevant to the analysis of the result., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0070], code=at0070, itemType=ELEMENT, level=1, text=Specimen collector identifier, description=Identifier of the person or organisation responsible for collecting the specimen., comment=This element is intended to be used where the specimen has already been collected and the actual collector is known., uncommonOntologyItems={fhir_mapping=Specimen.collection.collector}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0071], code=at0071, itemType=SLOT, level=1, text=Specimen collector details, description=The person or organisation responsible for collecting the specimen., comment=null, uncommonOntologyItems={fhir_mapping=Specimen.collection.collector}, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
All not explicitly excluded archetypes, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0083], code=at0083, itemType=SLOT, level=1, text=Additional collection details, description=Addtional details related to specific collection methods., comment=For example details about needle biopsies in prostate cancer, where both the request and reporting about the specimen are detailed and specific., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
All not explicitly excluded archetypes, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0080], code=at0080, itemType=ELEMENT, level=1, text=Number of containers, description=The total number of physical units holding this specimen., comment=For example: Number of buckets, jars, vials, tubes, blocks, slides or grids., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_COUNT, bindings=null, values=min: >=0

, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0085], code=at0085, itemType=SLOT, level=1, text=Container details, description=Details about containers used., comment=null, uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_container.v0 and specialisations Or
openEHR-EHR-CLUSTER.specimen_container.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0068], code=at0068, itemType=SLOT, level=1, text=Processing details, description=Structured details about preparation or processing of the specimen., comment=For example: Staining or fixation., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_preparation.v1 and specialisations Or
openEHR-EHR-CLUSTER.specimen_preparation.v0 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0093], code=at0093, itemType=SLOT, level=1, text=Transport details, description=Structured details about transport of the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_transport.v0 and specialisations Or
openEHR-EHR-CLUSTER.specimen_transport.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0096], code=at0096, itemType=SLOT, level=1, text=Digital representation, description=Structured details about a digital representation of the specimen., comment=For example the scanned image of a histopathology slide., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.multimedia.v1 and specialisations Or
openEHR-EHR-CLUSTER.multimedia.v0 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0003], code=at0003, itemType=ELEMENT, level=1, text=Parent specimen identifier, description=Unique identifier of the parent specimen, where the specimen is split into sub-samples., comment=For example: A specific histology slide specimen can have a specific paraffin wax block as its parent specimen., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0042], code=at0042, itemType=ELEMENT, level=1, text=Specimen quality issue, description=A specific quality issue with a specimen., comment=Coding of the specimen quality issues with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Coded Text
    • Haemolysed [The specimen was haemolysed.]
    • Lipaemic [The specimen was lipaemic.]
    • Icteric [The specimen was icteric.]
    • Clotted [The specimen was clotted.]
    • Incorrect additive [An incorrect additive such as a transport medium or preservative was added to the specimen.]
    • Insufficient amount [The available amount of specimen was insufficient to undertake the examination.]
    • Handling error [An error arose when handling the specimen. For example: Incorrect storage, broken container.]
    • Incorrectly labelled [The specimen was labelled incorrectly.]
    • Age [The specimen was too old to analyse or to analyse accurately.]
    • Technical failure [The specimen could not be analysed for technical reasons.]
  •  Text
, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0041], code=at0041, itemType=ELEMENT, level=1, text=Adequacy for testing, description=Information about whether the specimen was adequate for testing., comment=This element is intended to be used to record a judgement about whether or not the specimen quality was good enough for testing, and whether or not testing has been carried out. Coding of the specimen quality issues with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Coded Text
    • Satisfactory [The specimen is of sufficient quality to allow reporting.]
    • Unsatisfactory - analysed [The specimen is unsatisfactory but has been analysed.]
    • Unsatisfactory - not analysed [The specimen is unsatisfactory and has not been analysed.]
  •  Text
, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0045], code=at0045, itemType=ELEMENT, level=1, text=Comment, description=Additional narrative about the specimen not captured in other fields., comment=null, uncommonOntologyItems={fhir_mapping=Specimen.note}, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null]], minIndents={}, termBindingRetrievalErrorMessage=null]