: Public Class
Created: 11/11/2008 11:20:43 AM
Modified: 3/16/2015 3:22:42 PM
Project:
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DEFINITION:  <br /></p><p>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 /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Attribute
Public TN
  commonName
Details:
CADSR_DE_VERSION=4.0
CADSR_Description=The generally-used term for the organism (e.g., human is the common name for the species Homo sapiens).
Map:LSDAM=Organism.commonName
PropertyConceptCode=C42614
PropertyQualifierConceptCode1=C43461
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;The generally-used term for the organism type.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;human is the common name for the species Homo sapiens#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;
Public CD
  scientificNameCode
Details:
CADSR_DE_VERSION=4.0
CADSR_Description=The scientific name for the taxon, generally, the genus and species of the organism. For example Homo Sapiens or Mus.
Map:AE=Organism.species
Map:CTRv1.0=Animal.speciesCode
Map:HCTV1.0=CDE 2753243:Therapies.Specify the other source of the preparative regimen medication:
Map:HCTv1.0=CDE 2960357:Therapies.What was the source of the preparative regimen medication?
Map:HCTv1.0=CDE 2787403:Therapies.Specify the ALS, ALG, ATS, ATG animal source:
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:HL7SD=Animal.code
Map:HL7SP=Animal.name
Map:LSDAM=Organism.scientificName
Map:PGx v1.0=PF.PFNSPCES
Map:PGx v1.0=SB.SBNSPCES
Map:PGx v1.0=PG.PGNSPCES
Map:PGx v1.0=PB.PBNSPCES
PropertyConceptCode=C43459
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A coded value specifying the scientific term for the taxon, generally, the genus and species of the organism. #lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;Homo Sapiens or Mus.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;
Public CD
  taxonomyIdentifierCode
Details:
CADSR_DE_VERSION=2.0
CADSR_Description=The stable unique identifier for the taxon from a taxonomy database. For example a taxon identifier from the National Center for Biotechnology Information (NCBI)'s Taxonomy database.
Map:LSDAM=Organism.taxonomyIdentifier
PropertyConceptCode=C25364
PropertyQualifierConceptCode1=C17469
PropertyQualifierConceptCode2=C45799
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A coded value specifying the stable unique identifier for the taxon from a taxonomy database. #lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A taxon identifier from the National Center for Biotechnology Information (NCBI)'s Taxonomy database#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;
Public CD
  taxonomyRankCode
Details:
CADSR_DE_VERSION=1.0
CADSR_Description=Name of the node in a taxonomic tree. e.g., genus, species.
Map:LSDAM=Organism.taxonomyRank
PropertyConceptCode=C48904
PropertyQualifierConceptCode1=C17469
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A coded value specifying the name of the node in a taxonomic tree.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;genus, species#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;
Public DSET<CD>
  synonymCode
Details:
Map:LSDAM=Organism.(AdditionalOrganismName)
Map:LSDAMv2.2.3Plus=AdditionalOrganism.value
Map:LSDAMv2.2.3Plus=AdditionalOrganismName.value
Map:LSDAMv2.2.3Plus=test
Map:LSDAMv2.2.3Plus=AdditionalOrganismName.source
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A coded value specifying an alternate common or scientific name by which the biologic entity classification is known. #lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;Mus muscaris (as a misnomer for "Mus musculus") as a coded value coming from NCBI Taxonomy Database#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;
Public ST
  strain
Details:
Map:CTRv1.0=Animal.strain
Map:HL7SP=Animal.strainText
Map:LSDAM=BiologicEntity.subSpeciesRank
Map:LSDAMv2.2.3Plus=BiologicEntity.subSpeciesRank
Map:PGx v1.0=SB.SBNSTRN
Map:PGx v1.0=PG.PGNSTRN
Map:PGx v1.0=PF.PFNSTRN
Map:PGx v1.0=PB.PBNSTRN
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A group of presumed common ancestry with clear-cut physiological but usually not morphological distinctions.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;Minnesota5 (swine strain), DXL (poultry strain)#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;The specific genotypic or phenotypic variant of an animal, microorganism, fungus, or pathogen.#lt;br /#gt;#lt;/p#gt;
Public BL
  nonHostIndicator
Details:
Map:PGx v1.0=PF.PFNSPCES
Map:PGx v1.0=PG.PGNSPCES
Notes: DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;Specifies whether the biologic entity is an organism that is harbored or nourished by another organism (i.e. whether it is a parasite).#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;This concept does not include offspring.#lt;br /#gt;#lt;/p#gt;
Element Source Role Target Role
BiologicEntity
Class   		Name: classifiedBiologicEntity
  		Name: classifyingBiologicEntityClassification
 
Details:
DESCRIPTION:<br /></p><p>Each BiologicEntity always is classified as one BiologicEntityClassification.  Each BiologicEntityClassification might classify one or more BiologicEntity.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Biologic
Class   		Name: classifiedBiologic
  		Name: classifyingBiologicEntityClassification
 
Details:
DESCRIPTION:<br /></p><p>Each Biologic might be classified as one BiologicEntityClassification.  Each BiologicEntityClassification might classify one or more Biologic.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Pathway
Class   		Name: includedPathway
  		Name: includingBiologicEntityClassification
 
Details:
DESCRIPTION:<br /></p><p>Each Pathway might be included by one or more BiologicEntityClassification. Each BiologicEntityClassification might include one or more Pathway.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
MolecularSequence
Class   		Name: includedMolecularSequence
  		Name: includingBiologicEntityClassification
 
Details:
DESCRIPTION:<br /></p><p>Each MolecularSequence always is included in one BiologicEntityClassification. Each BiologicEntityClassification might include one or more MolecularSequence.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Genome
Class   		Name: containedGenome
  		Name: containingBiologicEntityClassification
 
Details:
DESCRIPTION:<br /></p><p>Each Genome always is part of one BiologicEntityClassification.  Each BiologicEntityClassification might contain one or more Genome. <br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Chromosome
Class   		Name: containedChromosome
  		Name: containingBiologicEntityClassification
 
Details:
DESCRIPTION:<br /></p><p>Each Chromosome always is part of one BiologicEntityClassification. Each BiologicEntityClassification might contain one or more Chromosome.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Tag Value
caArray v2.1 Organism C14250
Details:
 
Map:LSDAM Organism
Details:
 
Map:LSDAMv2.2.3Plus Organism
Details: