biological_taxonomy.mcf

Node: dcid:BiologicalEntity
name: "BiologicalEntity"
typeOf: schema:Class
subClassOf: dcs:BiomedicalEntity
description: "Biological entities."

Node: dcid:Species
name: "Species"
typeOf: schema:Class
subClassOf: dcs:Taxon
description: "The scientific name (Genus species) of a group of living organisms consisting of similar individuals capable of exchanging genes or interbreeding in the wild."

Node: dcid:Taxon
name: "Taxon"
typeOf: schema:Class
subClassOf: dcs:BiologicalEntity
definition: "A set of organisms asserted to represent a natural cohesive biological unit."

Node: dcid:biologicalIsolate
name: "biologicalIsolate"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "The individual isolate from which the sequences in the genome assembly were derived."
descriptionUrl: "https://ftp.ncbi.nlm.nih.gov/genomes/README_assembly_summary.txt"

Node: dcid:biologicalTaxonomyGroup
name: "biologicalTaxonomyGroup"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: dcs:BiologicalTaxonomyGroupEnum
description: "Commonly used organism groups."

Node: dcid:biologicalHost
name: "biologicalHost"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: dcs:BiologicalHostEnum
definition: "The type of larger biological organism that harbors this group of organisms."

Node: dcid:biologicalIsolate
name: "biologicalIsolate"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "The individual isolate from which the sequences in the genome assembly were derived."
descriptionUrl: "https://ftp.ncbi.nlm.nih.gov/genomes/README_assembly_summary.txt"

Node: dcid:breed
name: "breed"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "A breed is a specific group of domestic animals having homogeneous appearance (phenotype), homogeneous behavior, and/or other characteristics that distinguish it from other organisms of the same species. In literature, there exist several slightly deviating definitions. Breeds are formed through genetic isolation and either natural adaptation to the environment or selective breeding, or a combination of the two."
descriptionUrl: "https://en.wikipedia.org/wiki/Breed"

Node: dcid:commonName
name: "commonName"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: schema:Text
description: "In biology, a common name of a taxon or organism (also known as a vernacular name, English name, colloquial name, country name, popular name, or farmer's name) is a name that is based on the normal language of everyday life; and is often contrasted with the scientific name for the same organism, which is often based in Latin. A common name is sometimes frequently used, but that is not always the case."
descriptionUrl: "https://en.wikipedia.org/wiki/Common_name"

Node: dcid:cultivar
name: "cultivar"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "A cultivar is a kind of cultivated plant that people have selected for desired traits and which retains those traits when propagated. Methods used to propagate cultivars include division, root and stem cuttings, offsets, grafting, tissue culture, or carefully controlled seed production. Most cultivars arise from deliberate human manipulation, but some originate from wild plants that have distinctive characteristics. Cultivar names are chosen according to rules of the International Code of Nomenclature for Cultivated Plants (ICNCP), and not all cultivated plants qualify as cultivars. Horticulturists generally believe the word cultivar was coined as a term meaning 'cultivated variety'."
descriptionUrl: "https://en.wikipedia.org/wiki/Cultivar"

Node: dcid:ecotype
name: "ecotype"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "In evolutionary ecology, an ecotype, sometimes called ecospecies, describes a genetically distinct geographic variety, population, or race within a species, which is genotypically adapted to specific environmental conditions. Typically, though ecotypes exhibit phenotypic differences (such as in morphology or physiology) stemming from environmental heterogeneity, they are capable of interbreeding with other geographically adjacent ecotypes without loss of fertility or vigor."
descriptionUrl: "https://en.wikipedia.org/wiki/Ecotype"

Node: dcid:genBankName
name: "genBankName"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: schema:Text
definition: "The name by which GenBank refers to this taxon."

Node: dcid:hasInheritedDivsion
name: "hasInheritedDivsion"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: schema:Boolean
definition: "Division is inherited by the parent Taxon."

Node: dcid:infraspecificName
name: "infraspecificName"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "The scientific name for any taxon below the rank of species. This may also be referred to as an infraspecific taxon or infraspecies."
descriptionUrl: "https://en.wikipedia.org/wiki/Infraspecific_name"

Node: dcid:isLatestVersion
name: "isLatestVersion"
typeOf: schema:Property
domainIncludes: schema:Thing
rangeIncludes: schema:Boolean
description: "This is the latest version of the CreativeWork embodied by a specified resource."

Node: dcid:ncbiBlastName
name: "ncbiBlastName"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
definition: "The name by which NCBI Basic Local Alignment Search Tool (Blast) refers to this taxon."

Node: dcid:ncbiTaxId
name: "ncbiTaxId"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: schema:Number
definition: "Node id in ncbi GenBank taxonomy database."

Node: dcid:ofSpecies
name: "ofSpecies"
typeOf: schema:Property
rangeIncludes: dcs:Species
domainIncludes: dcs:BioChemEntity
description: "Species"

Node: dcid:ofStrain
name: "ofStrain"
typeOf: schema:Property
domainIncludes: dcs:BioChemEntity
rangeIncludes: dcs:Taxon
definition: "In biology, a strain is a genetic variant, a subtype or a culture within a biological species. Strains are often seen as inherently artificial concepts, characterized by a specific intent for genetic isolation."
definitionUrl: "https://en.wikipedia.org/wiki/Strain_(biology)"

Node: dcid:scientificName
name: "scientificName"
typeOf: schema:Property
rangeIncludes: schema:Text
domainIncludes: dcs:Taxon
description: "The scientific name of a species."

Node: dcid:strain
name: "strain"
typeOf: schema:Property
domainIncludes: dcs:BiologicalEntity
rangeIncludes: schema:Text
description: "A strain is a genetic variant, a subtype or a culture within a biological species. Strains are often seen as inherently artificial concepts, characterized by a specific intent for genetic isolation."
descriptionUrl: "https://en.wikipedia.org/wiki/Strain_(biology)"

Node: dcid:taxonDivision
name: "taxonDivision"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: dcs:BiologicalTaxonomicDivisionEnum
definition: "The broad biological division to which the group of organisms belongs."

Node: dcid:taxonRank
name: "taxonRank"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: dcs:BiologicalTaxonomicRankEnum
definition: "The relative level of the group of organisms (a taxon) is in an ancestral or hereditary hierarchy."

Node: dcid:taxonTopLevelCategory
name: "taxonTopLevelCategory"
typeOf: schema:Property
domainIncludes: dcs:Taxon
rangeIncludes: dcs:TaxonTopLevelCategoryEnum
definition: "The top level category to which a group of organisms (a taxon) belongs. This can be Archaea, Bacteria, Eukaryota, Viruses and Viroids, Other, and Unclassified."

Node: dcid:uniProtOrganismCode
typeOf: schema:Property
name: "uniProtOrganismCode"
description: "A mnemonic organism identification code of at most 5 alphanumeric characters is used in the entry name of UniProtKB entries, e.g. SP0A_BACSU. This code is generally made of the first three letters of the genus name and the first two letters of the species name."
descriptionUrl: "https://www.uniprot.org/help/taxonomy#organism-code"
rangeIncludes: schema:Text
domainIncludes: schema:Species