ARCHETYPE Biospecimen summary (openEHR-EHR-EVALUATION.biospecimen_summary.v0)

ARCHETYPE IDopenEHR-EHR-EVALUATION.biospecimen_summary.v0
ConceptBiospecimen summary
DescriptionSummary or persistent information about a human biospecimen, such as biofluids, tissue, cells or other human-derived material, collected or harvested.
UseUse to record summary or persistent record about a single biospecimen or biosample, from the time of collection or harvesting to disposition. This archetype is intended to support tracking the collection, storage, use or disposition of human biofluids, cells or tissue. Use cases include, but are not limited to: - oocytes, zygotes, embryos, or semen in assisted reproduction; and - autologous skin graft. Details about the biospecimen, including collection information, can be recorded using the CLUSTER.specimen in the 'Specimen details' SLOT. Details about the location of the biospecimen can be recorded using the CLUSTER.specimen_container and CLUSTER.biobank in the 'Storage details' SLOT.
MisuseNot to be used to record blood donation. Use purpose-specific archetypes for this purpose.
PurposeTo record a summary or persistent record about a single biospecimen or biosample.
ReferencesAshford, P., et al., Standard terminology for reproductive tissue and cell products for use in ART. Human Reproduction Open, 2019. 2019(2): p. hoz005.
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=Ashford, P., et al., Standard terminology for reproductive tissue and cell products for use in ART. Human Reproduction Open, 2019. 2019(2): p. hoz005., original_namespace=org.openehr, original_publisher=openEHR Foundation, custodian_namespace=org.openehr, MD5-CAM-1.0.1=00CA6048A5188FEE4911F4196E98E577, build_uid=b11f7ae4-ffc8-4f93-8490-15aca20165d9, revision=0.0.1-alpha}
Keywordsassisted reproduction, sperm, testicular, ovarian, tissue, oocyte, zygote, embryo, blastocyst, biobsy, graft
Lifecyclein_development
UID9f8451ff-900f-4c6f-96b6-c84524d5fc00
Language useden
Citeable Identifier1246.145.1724
Revision Number0.0.1-alpha
AllArchetype [runtimeNameConstraintForConceptName=null, archetypeConceptBinding=null, archetypeConceptDescription=Summary or persistent information about a human biospecimen, such as biofluids, tissue, cells or other human-derived material, collected or harvested., archetypeConceptComment=For example: a harvested oocyte, a sperm sample 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={description=[], state=[], identities=[], data=[ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0002], code=at0002, itemType=ELEMENT, level=2, text=Biospecimen ID, description=Unique identifier for the biospecimen., comment=For example: SEC-ID (The Single European Code) for tissues and cell products, used in, among other things, reproductive medicine treatment., 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[at0003], code=at0003, itemType=ELEMENT, level=2, text=Biospecimen type, description=The type of biofluids, tissue cells or other human-derived material collected., comment=For example: skin (for grafting); semen (for storage or donation). Coding of the biospecimen type with a terminology is preferred, where possible., uncommonOntologyItems=null, occurencesFormal=1..1, occurencesText=Mandatory, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0019], code=at0019, itemType=ELEMENT, level=2, text=Category, description=The category of the biospecimen., comment=For example: Normal/Abnormal; or Tumoral/Peritumoral., 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[at0004], code=at0004, itemType=ELEMENT, level=2, text=Description, description=Narrative description about the biospecimen., comment=For example, information about how it 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[at0005], code=at0005, itemType=ELEMENT, level=2, text=Treatment, description=Narrative description about the management of the biospecimen prior to preservation, including clinical treatments., comment=It is possible to link from this data element to an ACTION.procedure within the health record to record the specific details about the clinical procedure/s and timing., 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[at0006], code=at0006, itemType=ELEMENT, level=2, text=Date of preservation, description=The date/time when the biospecimen was preserved., 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[at0007], code=at0007, itemType=ELEMENT, level=2, text=Type of preservation, description=The technique used to preserve the biospecimen., 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[at0008], code=at0008, itemType=SLOT, level=2, text=Specimen details, description=Details about the biospecimen., comment=For example: date & time of collection, specific project number for the biospecimen collection., 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[at0018], code=at0018, itemType=ELEMENT, level=2, text=Date of storage, description=The date/time when the biospecimen 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[at0009], code=at0009, itemType=SLOT, level=2, text=Storage details, description=Details about the storage of the biospecimen., comment=For example: details about the container and biobank where the biospecimen is stored., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.biobank_storage.v0 and specialisations or
openEHR-EHR-CLUSTER.biobank_storage.v1 and specialisations or
openEHR-EHR-CLUSTER.specimen_container.v0 and specialisations or
openEHR-EHR-CLUSTER.specimen_container.v1 and specialisations, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/data[at0001]/items[at0010], code=at0010, itemType=ELEMENT, level=2, text=Disposition, description=The final disposition of the biospecimen., comment=Usually this involves use, donation or disposal., 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 disposition, description=The date/time for the disposition of the biospecimen., 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[at0012], code=at0012, itemType=ELEMENT, level=2, text=Expiry date, description=The date beyond the biospecimen is not to be used., 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[at0017], code=at0017, itemType=SLOT, level=2, text=Additional details, description=Additional structured details related to the biospecimen., 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 biospecimen, 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]], target=[], source=[], relationships=[], provider=[], protocol=[ResourceSimplifiedHierarchyItem [path=/protocol[at0013]/items[at0014], code=at0014, itemType=ELEMENT, level=2, text=Last updated, description=The date this biospecimen 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]], details=[], other_participations=[], activities=[], items=[], events=[], contacts=[], capabilities=[], ism_transition=[], credentials=[], context=[], content=[]}, topLevelItems={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], 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]}, addHierarchyItemsTo=protocol, currentHierarchyItemsForAdding=[ResourceSimplifiedHierarchyItem [path=/protocol[at0013]/items[at0014], code=at0014, itemType=ELEMENT, level=2, text=Last updated, description=The date this biospecimen 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]