ARCHETYPE ID | openEHR-EHR-CLUSTER.lab_molecular_microbial.v0 |
Concept | Molecular microbial test findings |
Description | The result of a laboratory test for the detection and identification of specific micro-organism DNA or RNA in a specimen, using nucleic acid probes. |
Use | Use to record the qualitative and quantitative findings for a specific microbial molecular genetic test. |
Misuse | Not to be used to record findings observed from microbial culture of a specimen - use the CLUSTER.laboratory_test_culture archetype for this purpose. Not to be used to record findings from antigen or antibody testing of a specimen - use the CLUSTER.laboratory_test_antibody or CLUSTER.laboratory_test_antigen archetypes for this purpose. |
Purpose | To record the qualitative and quantitative findings for a specific microbial molecular genetic test. |
References | https://www.rcpa.edu.au/Manuals/RCPA-Manual/Pathology-Tests/M/Molecular-genetics-microbial |
Copyright | © openEHR Foundation, Ministry of Health and Wellness Jamaica |
Authors | Author name: Heather Leslie Organisation: Atomica Informatics Email: heather.leslie@atomicainformatics.com Date originally authored: 2024-08-09 |
Other Details Language | Author name: Heather Leslie Organisation: Atomica Informatics Email: heather.leslie@atomicainformatics.com Date originally authored: 2024-08-09 |
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=https://www.rcpa.edu.au/Manuals/RCPA-Manual/Pathology-Tests/M/Molecular-genetics-microbial, original_namespace=org.openehr, original_publisher=openEHR Foundation, custodian_namespace=org.openehr, MD5-CAM-1.0.1=A051F2B1462DDD9E38AEA9E5F7B86189, build_uid=91c63f51-2650-43e7-9e44-87a62ab3a022, revision=0.0.1-alpha} |
Keywords | nucleic,probe,DNA,RNA,microbial,molecular,genetic,gene |
Lifecycle | in_development |
UID | 8db141b8-785f-4a55-966c-f959507b6a59 |
Language used | en |
Citeable Identifier | 1013.1.7650 |
Revision Number | 0.0.1-alpha |
All | Archetype [runtimeNameConstraintForConceptName=null, archetypeConceptBinding=null, archetypeConceptDescription=The result of a laboratory test for the detection and identification of specific micro-organism DNA or RNA in a specimen, using nucleic acid probes., archetypeConceptComment=null, otherContributors=Nicola Ewen, SERHA/Ministry of Health and Wellness, Jamaica Heather Leslie, Atomica Informatics, Australia (openEHR Editor) Yohann White, Ministry of Health and Wellness, Jamaica, originalLanguage=en, translators=, subjectOfData=unconstrained, archetypeTranslationTree=null, topLevelToAshis={state=[], contacts=[], details=[], description=[], content=[], provider=[], data=[], identities=[], other_participations=[], activities=[], protocol=[], credentials=[], events=[], context=[], relationships=[], target=[], capabilities=[], items=[ResourceSimplifiedHierarchyItem [path=/items[at0049], code=at0049, itemType=ELEMENT, level=1, text=Test name, description=Name of the molecular test carried out., comment=Coding with an external terminology is recommended, if available. For example: PCR for Mycobacterium tuberculosis or SARS-CoV-2., 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[at0059], code=at0059, itemType=ELEMENT, level=1, text=Microbial target, description=The name of the microorganism being detected., comment=Coding with an external terminology is recommended, if available. For example: SARS-CoV-2, Mycobacterium tuberculosis, or Candida albicans., 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[at0057], code=at0057, itemType=ELEMENT, level=1, text=Molecular target, description=The specific genetic material within the microorganism that is being detected., comment=Coding with an external terminology is recommended, if available. For example: 16S rRNA gene (for bacteria), RdRp gene (for SARS-CoV-2), or ITS region (for fungi)., 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[at0055], code=at0055, itemType=ELEMENT, level=1, text=Test method, description=Method used for the molecular test., comment=For example: PCR, RT-PCR, NGS, isothermal amplification., 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[at0033], code=at0033, itemType=SLOT, level=1, text=Specimen, description=Identification of the specimen examined., comment=If the tissue specimen has previously been identified in a a higher level archetype level archetype, such as the OBSERVATION.laboratory_test_result, this SLOT may be redundant., 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[at0050], code=at0050, itemType=ELEMENT, level=1, text=Presence, description=Statement about detection of the identified microorganism in the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_CODED_TEXT, bindings=null, values=
Units: copies/mL, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0022], code=at0022, itemType=ELEMENT, level=1, text=Comment, description=Additional narrative about the test finding 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]], source=[], ism_transition=[]}, 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[at0049], code=at0049, itemType=ELEMENT, level=1, text=Test name, description=Name of the molecular test carried out., comment=Coding with an external terminology is recommended, if available. For example: PCR for Mycobacterium tuberculosis or SARS-CoV-2., 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[at0059], code=at0059, itemType=ELEMENT, level=1, text=Microbial target, description=The name of the microorganism being detected., comment=Coding with an external terminology is recommended, if available. For example: SARS-CoV-2, Mycobacterium tuberculosis, or Candida albicans., 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[at0057], code=at0057, itemType=ELEMENT, level=1, text=Molecular target, description=The specific genetic material within the microorganism that is being detected., comment=Coding with an external terminology is recommended, if available. For example: 16S rRNA gene (for bacteria), RdRp gene (for SARS-CoV-2), or ITS region (for fungi)., 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[at0055], code=at0055, itemType=ELEMENT, level=1, text=Test method, description=Method used for the molecular test., comment=For example: PCR, RT-PCR, NGS, isothermal amplification., 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[at0033], code=at0033, itemType=SLOT, level=1, text=Specimen, description=Identification of the specimen examined., comment=If the tissue specimen has previously been identified in a a higher level archetype level archetype, such as the OBSERVATION.laboratory_test_result, this SLOT may be redundant., 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[at0050], code=at0050, itemType=ELEMENT, level=1, text=Presence, description=Statement about detection of the identified microorganism in the specimen., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_CODED_TEXT, bindings=null, values=
Units: copies/mL, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0022], code=at0022, itemType=ELEMENT, level=1, text=Comment, description=Additional narrative about the test finding 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]], minIndents={}, termBindingRetrievalErrorMessage=null] |