ARCHETYPE Specimen_summary (openEHR-EHR-EVALUATION.specimen_summary.v0)

ARCHETYPE IDopenEHR-EHR-EVALUATION.specimen_summary.v0
ConceptSpecimen_summary
DescriptionSummary or persistent information about a single specimen.
UseUse to record summary or persistent record about the use and storage of a single specimen until final disposition. Use cases include, but are not limited to: - oocytes, zygotes, embryos, or semen in assisted reproduction; - autologous skin graft; - Formalin Fixed Paraffin Embedded (FFPE) tissue specimens; and - Histopathology slides. Details about the specimen, including specimen type, description, type of fixative, can be recorded using the CLUSTER.specimen in the 'Specimen details' SLOT.
PurposeTo record summary or persistent record about the use and storage of a single specimen until final disposition.
References
Copyright© openEHR Foundation
AuthorsAuthor name: Heather Leslie
Organisation: Atomica Informatics
Email: heather.leslie@atomicainformatics.com
Date originally authored: 2022-01-25
Other Details LanguageAuthor name: Heather Leslie
Organisation: Atomica Informatics
Email: heather.leslie@atomicainformatics.com
Date originally authored: 2022-01-25
OtherDetails Language Independent{licence=This work is licensed under the Creative Commons Attribution-ShareAlike 4.0 International License. To view a copy of this license, visit http://creativecommons.org/licenses/by-sa/4.0/., custodian_organisation=openEHR Foundation, references=, original_namespace=org.openehr, original_publisher=openEHR Foundation, custodian_namespace=org.openehr, MD5-CAM-1.0.1=ABFAAF02B422DC756E3D429732CDC43D, build_uid=c54d69c2-2508-4806-95cc-ffb39278d195, revision=0.0.2-alpha}
Keywordsbiobank, biospecimen, biofluids, samples, biopsy, assisted reproduction, sperm, testicular, ovarian, tissue, oocyte, zygote, embryo, blastocyst, graft, blood, tissue, DTC, TMA, FFPE, PBMC, BMMC, Leukopak, DTC, cytology, bacterial cultures, genebank, biological materials
Lifecyclein_development
UID1f3755d9-a2df-4141-b702-f7ce9179b69a
Language useden
Citeable Identifier1246.145.1724
Revision Number0.0.2-alpha
AllArchetype [runtimeNameConstraintForConceptName=null, archetypeConceptBinding=null, archetypeConceptDescription=Summary or persistent information about a single specimen., archetypeConceptComment=For example: a harvested oocyte, a bacterial culture, tumor tissue or tissue graft., otherContributors=Vebjørn Arntzen, Oslo University Hospital, Norway (openEHR Editor)
Peter Fedorcsak, University of Oslo, Norway (openEHR Editor)
Liv Laugen, ​Oslo University Hospital, Norway, Norway (openEHR Editor)
Heather Leslie, Atomica Informatics, Australia (openEHR Editor), originalLanguage=en, translators=German: Natalia Strauch, Medizinische Hochschule Hannover, Strauch.Natalia@mh-hannover.de
Norwegian Bokmål: Liv Laugen, ​Oslo University Hospital, Norway, liv.laugen@ous-hf.no
, subjectOfData=unconstrained, archetypeTranslationTree=null, topLevelToAshis={source=[], capabilities=[], contacts=[], items=[], credentials=[], content=[], provider=[], data=[ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0032], code=at0032, itemType=ELEMENT, level=2, text=Specimen label, description=Name, type or label 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=/data[at0001]/items[at0031], code=at0031, itemType=ELEMENT, level=2, text=Description, description=Narrative description about the history or/and the context of the specimen., comment=For example, the reason for the storage of the specimen, why the specimen was collected., 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=/data[at0001]/items[at0002], code=at0002, itemType=ELEMENT, level=2, text=Stored specimen ID, description=Unique identifier for the specimen., comment=For example: SEC-ID (The Single European Code) for tissues and cell products or biobank generated biospeciment ID like "Kit_KFO241_123456789_BLD_01"., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CHOICE, bindings=null, values=Choice of:
  •  Identifier
  •  Text
, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0018], code=at0018, itemType=ELEMENT, level=2, text=Storage started, description=The date/time when the specimen was stored., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0008], code=at0008, itemType=SLOT, level=2, text=Specimen details, description=Details about the biospecimen., comment=For example: type of specimen, date & time of collection, processing details and preservation of the specimen., 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.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0022], code=at0022, itemType=CLUSTER, level=2, text=Use, description=Details about use of the specimen., comment=To record the use of alle or part of the specimen., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=1..*, cardinalityText=, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0022]/items[at0023], code=at0023, itemType=ELEMENT, level=3, text=Reason for use, description=The reason for the use of the specimen., comment=For example: insemination, re-investigation, research for prosjekt ID 5454., 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=/data[at0001]/items[at0022]/items[at0024], code=at0024, itemType=ELEMENT, level=3, text=Date of use, description=The date and time when the specimen was used., 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=/data[at0001]/items[at0022]/items[at0026], code=at0026, itemType=SLOT, level=3, text=Amount used, description=The amount of the specimen that was 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_measurements.v1, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0022]/items[at0029], code=at0029, itemType=ELEMENT, level=3, text=Number used, description=The number of units of the specimen used., comment=For example: number of straws, embryos, slides, tubes., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_COUNT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0022]/items[at0027], code=at0027, itemType=ELEMENT, level=3, text=Use comment, description=Comment about the use 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=/data[at0001]/items[at0028], code=at0028, itemType=SLOT, level=2, text=Amount remaining, description=The residual amount of the specimen available for use., comment=If none of the specimen has been used this will be the same amount that has been collected., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.specimen_measurements.v1, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0030], code=at0030, itemType=ELEMENT, level=2, text=Number remaining, description=The remaining units of the specimen available for use., comment=For example: remaining number of straws, embryos, slides, tubes., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_COUNT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0012], code=at0012, itemType=ELEMENT, level=2, text=Expiry date, description=The date beyond the specimen is not to be used., comment=This element is made multiple to make it possible to record different types of expiry dates, for example: -expiration date that refer to quality (exceeding the anticipated shelf life). -expiration date by operation of law., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0010], code=at0010, itemType=ELEMENT, level=2, text=Disposal reason, description=The reason for disposal of the specimen., comment=For example: expiry date, legal regulation, withdrawal of the consent, quality issues., 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=/data[at0001]/items[at0011], code=at0011, itemType=ELEMENT, level=2, text=Date of disposal, description=The date/time for the final disposal of the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0009], code=at0009, itemType=SLOT, level=2, text=Biobank location, description=Details about the biobank/storage 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.organisation.v1, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0020], code=at0020, itemType=ELEMENT, level=2, text=Specimen storage, description=The storage location of the specimen within in the biobank/organisation., comment=For example; "tank-1, canister-2, story-1, goblet-4, case-3" or "P1-1-3-4-150" or "tray-1, coordinates R3-C2". This data element has 0..* occurrences to allow recording of separat positions or coordinates in a storage hierarchy., 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=/data[at0001]/items[at0017], code=at0017, itemType=SLOT, level=2, text=Additional details, description=Additional structured details related to the stored specimen., comment=null, 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=/data[at0001]/items[at0016], code=at0016, itemType=ELEMENT, level=2, text=Comment, description=Additional narrative about the specimen, not captured in other fields., 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]], relationships=[], context=[], other_participations=[], description=[], protocol=[ResourceSimplifiedHierarchyItem [path=/protocol[at0013]/items[at0014], code=at0014, itemType=ELEMENT, level=2, text=Last updated, description=The date this specimen summary was last updated., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/protocol[at0013]/items[at0015], code=at0015, itemType=SLOT, level=2, text=Extension, description=Additional information required to extend the model with local content or to align with other reference models or formalisms., comment=For example: local information requirements; or additional metadata to align with FHIR., 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]], events=[], activities=[], state=[], ism_transition=[], identities=[], details=[], target=[]}, topLevelItems={protocol=ResourceSimplifiedHierarchyItem [path=ROOT_/protocol[at0013], code=at0013, itemType=ITEM_TREE, level=0, text=null, description=null, comment=null, uncommonOntologyItems=null, occurencesFormal=1..1, occurencesText=Mandatory, cardinalityFormal=0..1, cardinalityText=optional, subCardinalityFormal=0..*, subCardinalityText=Minimum of 0 items, dataType=ITEM_TREE, bindings=null, values=null, extendedValues=null], data=ResourceSimplifiedHierarchyItem [path=ROOT_/data[at0001], code=at0001, itemType=ITEM_TREE, level=0, text=null, description=null, comment=null, uncommonOntologyItems=null, occurencesFormal=1..1, occurencesText=Mandatory, cardinalityFormal=0..1, cardinalityText=optional, subCardinalityFormal=0..*, subCardinalityText=Minimum of 0 items, dataType=ITEM_TREE, bindings=null, values=null, extendedValues=null]}, addHierarchyItemsTo=protocol, currentHierarchyItemsForAdding=[ResourceSimplifiedHierarchyItem [path=/protocol[at0013]/items[at0014], code=at0014, itemType=ELEMENT, level=2, text=Last updated, description=The date this specimen summary was last updated., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/protocol[at0013]/items[at0015], code=at0015, itemType=SLOT, level=2, text=Extension, description=Additional information required to extend the model with local content or to align with other reference models or formalisms., comment=For example: local information requirements; or additional metadata to align with FHIR., 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]], minIndents={}, termBindingRetrievalErrorMessage=null]