: Public Class
Created: 11/11/2008 11:20:43 AM
Modified: 1/25/2019 2:52:25 PM
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DEFINITION:  <br/>A group within a system of categories distinguished by structure, origin, etc. to which organisms may be assigned. [adapted from http://dictionary.reference.com/browse/classification?s=t]<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Attribute
Public TN
  commonName
Details:
Map:LSDAMv2.2.3Plus=Organism.commonName
Notes: DEFINITION:<br/>The generally-used term for the organism type.<br/><br/>EXAMPLE(S):<br/>human is the common name for the species Homo sapiens<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Public CD
  scientificNameCode
Details:
Map:AE=Organism.species
Map:CTRv1.0=Animal.speciesCode
Map:DICOM=TID 1007 SubjectContext,Patient > Subject Species
Map:DICOM=Patient Module - Patient Species Description (0010,2201)
Map:HCTV1.0=CDE 2753243:Therapies.Specify the other source of the preparative regimen medication:
Map:HCTv1.0=CDE 2787415:Therapies.Specify the ALS, ALG, ATS, ATG animal source:x
Map:HCTV1.0=CDE 2960362:Therapies.What was the other source of the preparative regimen medication?
Map:HCTv1.0=CDE 2787403:Therapies.Specify the ALS, ALG, ATS, ATG animal source:
Map:HCTv1.0=CDE 2960357:Therapies.What was the source of the preparative regimen medication?
Map:HL7SD=Animal.code
Map:HL7SP=Animal.name
Map:LSDAMv2.2.3Plus=Organism.scientificName
Map:PGx v1.0=SB.SBNSPCES
Map:PGx v1.0=PG.PGNSPCES
Map:PGx v1.0=PB.PBNSPCES
Map:PGx v1.0=PF.PFNSPCES
Notes: DEFINITION:<br/>A coded value specifying the scientific term for the taxon, generally, the genus and species of the organism. <br/><br/>EXAMPLE(S):<br/>Homo Sapiens or Mus.<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Public CD
  taxonomyIdentifierCode
Details:
Map:DICOM=Patient Module - Patient Species Code Sequence > Code Value (0008,0100)
Map:DICOM=Patient Module - Patient Species Code Sequence > Coding Scheme Designator (0008,0102)
Map:DICOM=Patient Module - Patient Species Code Sequence > Coding Scheme Version (0008,0103)
Map:DICOM=Patient Module - Patient Species Code Sequence > Code Meaning (0008,0104)
Map:DICOM=Patient Module - Patient Species Code Sequence > Long Code Value (0008,0119)
Map:DICOM=Patient Module - Patient Species Code Sequence (0010,2202)
Map:DICOM=Patient Module - Patient Species Code Sequence > URN Code Value (0008,0120)
Map:LSDAMv2.2.3Plus=Organism.taxonomyIdentifier
Notes: DEFINITION:<br/>A coded value specifying the stable unique identifier for the taxon from a taxonomy database. <br/><br/>EXAMPLE(S):<br/>A taxon identifier from the National Center for Biotechnology Information (NCBI)'s Taxonomy database<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Public CD
  taxonomyRankCode
Details:
Map:LSDAMv2.2.3Plus=Organism.taxonomyRange
Notes: DEFINITION:<br/>A coded value specifying the name of the node in a taxonomic tree.<br/><br/>EXAMPLE(S):<br/>genus, species<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Public DSET<CD>
  synonymCode
Details:
Map:LSDAMv2.2.3Plus=AdditionalOrganismName.value
Map:LSDAMv2.2.3Plus=Organism.(AdditionalOrganismName)
Map:LSDAMv2.2.3Plus=AdditionalOrganism.value
Map:LSDAMv2.2.3Plus=AdditionalOrganismName.source
Notes: DEFINITION:<br/>A coded value specifying an alternate common or scientific name by which the biologic entity classification is known. <br/><br/>EXAMPLE(S):<br/>Mus muscaris (as a misnomer for "Mus musculus") as a coded value coming from NCBI Taxonomy Database<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Public CD
  breedCode
Details:
Map:AE=Animal.breed
Map:CTRv1.0=Animal.breedCode
Map:DICOM=TID 1007 SubjectContext,Patient > Subject Breed
Map:DICOM=Patient Module - Patient Breed Code Sequence (0010,2293)
Map:DICOM=Patient Module - Patient Breed Description (0010,2292)
Map:LSDAMv2.2.3Plus=Animal.breedCode
Notes: DEFINITION:<br/>A coded value specifying a group of animals presumably related by descent from common ancestors and visibly similar in most characteristics.<br/><br/>EXAMPLE(S):<br/>Holstein, Angora, Himalayan cat, Labrador Retriever<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Public SC
  strain
Details:
Map:CTRv1.0=Animal.strain
Map:DICOM=Patient Module - Strain Description (0010,0212)
Map:DICOM=Patient Module - Strain Nomenclature (0010,0213)
Map:DICOM=Patient Module - Strain Code Sequence (0010,0219)
Map:HL7SP=Animal.strainText
Map:LSDAMv2.2.3Plus=BiologicEntity.subSpeciesRank
Map:PGx v1.0=PB.PBNSTRN
Map:PGx v1.0=PG.PGNSTRN
Map:PGx v1.0=SB.SBNSTRN
Map:PGx v1.0=PF.PFNSTRN
Notes: DEFINITION:<br/>The text (and optional code) specifying a group of presumed common ancestry with clear-cut physiological but usually not morphological distinctions.<br/><br/>EXAMPLE(S):<br/>Minnesota5 (swine strain), DXL (poultry strain)<br/>For DICOM’s Strain Code Sequence (0010,0219):  string = “C57BL/6J”, code = “3028467”.<br/>For DICOM's Strain Nomenclature (0010,0213):  codeSystem(OID).extension = "MGI_2013", codeSystem(OID).root = #lt;OID for DICOM assigned terms for strain nomenclature#gt;<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>The specific genotypic or phenotypic variant of an animal, microorganism, fungus, or pathogen.<br/>DICOM defines this to be a group of animals that are genetically uniform.<br/>
Public ST
  strainComment
Details:
Map:DICOM=Patient Module - Strain Additional Information (0010,0216)
Notes: DEFINITION:<br/>Additional information about the strain.<br/><br/>EXAMPLE(S):<br/>"Athymic nude" mouse which is not described by the nomenclature of "NCr-nu/nu“<br/><br/>OTHER NAME(S):<br/>Strain Additional Information<br/><br/>NOTE(S):<br/>
Public II
  strainStockIdentifier
Details:
Map:DICOM=Patient Module - Strain Stock Sequence > Strain Source (0010,0217)
Map:DICOM=Patient Module - Strain Stock Sequence > Strain Stock Number (0010,0214)
Notes: DEFINITION:<br/>A unique symbol that establishes the identity of the sub-population of the strain as obtained from a particular source.<br/><br/>EXAMPLE(S):<br/>II.extension = 000664<br/>II.root = #lt;OID for Jrep#gt;<br/><br/>OTHER NAME(S):<br/>Strain Stock Sequence<br/><br/>NOTE(S):<br/>
Public BL
  nonHostIndicator
Details:
Map:PGx v1.0=PF.PFNSPCES
Map:PGx v1.0=PG.PGNSPCES
Notes: DEFINITION:<br/>Specifies whether the biologic entity is an organism that is harbored or nourished by another organism (i.e. whether it is a parasite).<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>This concept does not include offspring.<br/>
Element Source Role Target Role
«DEPRECATED» MolecularSequence
Class  
Name: includedMolecularSequence
 
Name: includingBiologicEntityClassification
 
Details:
DESCRIPTION:<br/>Each MolecularSequence always is included in one BiologicEntityClassification. Each BiologicEntityClassification might include one or more MolecularSequence.<br/><br/>DEFINITION:<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
«DEPRECATED» Genome
Class  
Name: containedGenome
 
Name: containingBiologicEntityClassification
 
Details:
DESCRIPTION:<br/>Each Genome always is part of one BiologicEntityClassification.  Each BiologicEntityClassification might contain one or more Genome. <br/><br/>DEFINITION:<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Biologic
Class  
Name: classifiedBiologic
 
Name: classifyingBiologicEntityClassification
 
Details:
DESCRIPTION:<br/>Each Biologic might be classified as one BiologicEntityClassification.  Each BiologicEntityClassification might classify one or more Biologic.<br/><br/>DEFINITION:<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
«DEPRECATED» Pathway
Class  
Name: includedPathway
 
Name: includingBiologicEntityClassification
 
Details:
DESCRIPTION:<br/>Each Pathway might be included by one or more BiologicEntityClassification. Each BiologicEntityClassification might include one or more Pathway.<br/><br/>DEFINITION:<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
«DEPRECATED» Chromosome
Class  
Name: containedChromosome
 
Name: containingBiologicEntityClassification
 
Details:
DESCRIPTION:<br/>Each Chromosome always is part of one BiologicEntityClassification. Each BiologicEntityClassification might contain one or more Chromosome.<br/><br/>DEFINITION:<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
BiologicEntity
Class  
Name: classifiedBiologicEntity
 
Name: classifyingBiologicEntityClassification
 
Details:
DESCRIPTION:<br/>Each BiologicEntity always is classified as one BiologicEntityClassification.  Each BiologicEntityClassification might classify one or more BiologicEntity.<br/><br/>DEFINITION:<br/><br/>EXAMPLE(S):<br/><br/>OTHER NAME(S):<br/><br/>NOTE(S):<br/>
Tag Value
Map:LSDAMv2.2.3Plus Organism
Details: