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phyloref.owl
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<?xml version="1.0"?>
<rdf:RDF xmlns="http://ontology.phyloref.org/phyloref.owl#"
xml:base="http://ontology.phyloref.org/phyloref.owl"
xmlns:dc="http://purl.org/dc/elements/1.1/"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:xml="http://www.w3.org/XML/1998/namespace"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:terms="http://purl.org/dc/terms/"
xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"
xmlns:phyloref="http://ontology.phyloref.org/phyloref.owl#">
<owl:Ontology rdf:about="http://ontology.phyloref.org/phyloref.owl">
<owl:versionIRI rdf:resource="http://ontology.phyloref.org/2021-03-15/phyloref.owl"/>
<owl:imports rdf:resource="http://purl.obolibrary.org/obo/cdao.owl"/>
<owl:imports rdf:resource="http://purl.obolibrary.org/obo/omo.owl"/>
<dc:creator>Hilmar Lapp</dc:creator>
<dc:description xml:lang="en">The Phyloreferencing Ontology is an application ontology for defining, computing with, and resolving phylogenetic clade definitions in the form of logic expressions.</dc:description>
<dc:rights rdf:resource="http://creativecommons.org/publicdomain/zero/1.0/"/>
<dc:title xml:lang="en">Phyloreferencing Ontology</dc:title>
<terms:rights rdf:resource="http://creativecommons.org/publicdomain/zero/1.0/"/>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Generated by ROBOT version 1.8.1 from phyloref.ofn</rdfs:comment>
<rdfs:seeAlso rdf:resource="https://github.com/phyloref/phyloref-ontology"/>
<rdfs:seeAlso rdf:resource="https://phyloref.org/"/>
</owl:Ontology>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://ontology.phyloref.org/phyloref.owl#newick_expression -->
<owl:AnnotationProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#newick_expression">
<obo:IAO_0000115>The expression of a phylogenetic tree or network topology (and possibly the limited set of metadata supported by the format) in the Newick format.</obo:IAO_0000115>
<rdfs:seeAlso rdf:resource="https://en.wikipedia.org/wiki/Newick_format"/>
</owl:AnnotationProperty>
<!-- http://purl.org/dc/terms/rights -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/rights"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Object Properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://ontology.phyloref.org/phyloref.owl#apomorphy -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#apomorphy">
<obo:IAO_0000115>Relates a phyloreference to an apormorphy it uses for defining a clade.</obo:IAO_0000115>
<dc:description xml:lang="en">An apomorphy here is generally understood as an instance of SIO:phenotype (http://semanticscience.org/resource/SIO_010056), though this is not currently asserted.</dc:description>
<rdfs:comment xml:lang="en">This property is related to, but not strictly a subproperty of RO:has_phenotype (http://purl.obolibrary.org/obo/RO_0002200) because the RO property is defined as holding _between a biological entity and a phenotype_. A phyloreference is an information content entity.</rdfs:comment>
<rdfs:label xml:lang="en">uses apomorphy</rdfs:label>
<rdfs:seeAlso rdf:resource="http://purl.obolibrary.org/obo/RO_0002200"/>
</owl:ObjectProperty>
<!-- http://ontology.phyloref.org/phyloref.owl#excludes_TU -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#excludes_TU">
<rdfs:subPropertyOf rdf:resource="http://ontology.phyloref.org/phyloref.owl#has_outside_TU"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#excludes_lineage_to"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000187"/>
</owl:propertyChainAxiom>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#excludes_lineage_to"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000187"/>
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#matches_TU"/>
</owl:propertyChainAxiom>
</owl:ObjectProperty>
<!-- http://ontology.phyloref.org/phyloref.owl#excludes_lineage_to -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#excludes_lineage_to">
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#has_Sibling"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000174"/>
</owl:propertyChainAxiom>
</owl:ObjectProperty>
<!-- http://ontology.phyloref.org/phyloref.owl#has_Sibling -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#has_Sibling">
<rdfs:subPropertyOf rdf:resource="http://ontology.phyloref.org/phyloref.owl#excludes_lineage_to"/>
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#SymmetricProperty"/>
</owl:ObjectProperty>
<!-- http://ontology.phyloref.org/phyloref.owl#has_outside_TU -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#has_outside_TU">
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000144"/>
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#excludes_TU"/>
</owl:propertyChainAxiom>
</owl:ObjectProperty>
<!-- http://ontology.phyloref.org/phyloref.owl#includes_TU -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#includes_TU">
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000174"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000187"/>
</owl:propertyChainAxiom>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000174"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000187"/>
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#matches_TU"/>
</owl:propertyChainAxiom>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000187"/>
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#matches_TU"/>
</owl:propertyChainAxiom>
</owl:ObjectProperty>
<!-- http://ontology.phyloref.org/phyloref.owl#matches_TU -->
<owl:ObjectProperty rdf:about="http://ontology.phyloref.org/phyloref.owl#matches_TU">
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000050 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000050">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<rdfs:label>part of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000051 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000051">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<rdfs:label>has part</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/CDAO_0000149 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/CDAO_0000149">
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000149"/>
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#has_Sibling"/>
</owl:propertyChainAxiom>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/CDAO_0000174 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/CDAO_0000174"/>
<!-- http://purl.obolibrary.org/obo/CDAO_0000179 -->
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000179">
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#has_Sibling"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000179"/>
</owl:propertyChainAxiom>
</rdf:Description>
<!-- http://purl.obolibrary.org/obo/CDAO_0000187 -->
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000187">
<rdfs:subPropertyOf rdf:resource="http://ontology.phyloref.org/phyloref.owl#includes_TU"/>
<rdfs:subPropertyOf rdf:resource="http://ontology.phyloref.org/phyloref.owl#matches_TU"/>
</rdf:Description>
<!-- http://purl.obolibrary.org/obo/CDAO_0000200 -->
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000200">
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000179"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000200"/>
</owl:propertyChainAxiom>
</rdf:Description>
<!-- http://purl.obolibrary.org/obo/CDAO_0000203 -->
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000203">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000200"/>
</rdf:Description>
<!-- http://purl.obolibrary.org/obo/OBI_0000293 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000293">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000295"/>
<obo:IAO_0000115>A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.</obo:IAO_0000115>
<rdfs:label>has_specified_input</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000295 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000295">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<obo:IAO_0000115>A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.</obo:IAO_0000115>
<rdfs:label>is_specified_input_of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000299 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000299">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
<obo:IAO_0000115>A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.</obo:IAO_0000115>
<rdfs:label>has_specified_output</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000312 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000312">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<obo:IAO_0000115>A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.</obo:IAO_0000115>
<rdfs:label>is_specified_output_of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000057 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000057">
<obo:IAO_0000115>A relation between a process and a continuant, in which the continuant is somehow involved in the process.</obo:IAO_0000115>
<rdfs:label>has participant</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002472 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002472">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002616"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002558"/>
<obo:IAO_0000115>A relationship between a piece of evidence a and some entity b, where b is an information content entity, material entity or process, and
the a supports either the existence of b, or the truth value of b.</obo:IAO_0000115>
<rdfs:label>is evidence for</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002558 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002558">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002616"/>
<obo:IAO_0000115>inverse of is evidence for</obo:IAO_0000115>
<obo:IAO_0000119 rdf:resource="http://www.ncbi.nlm.nih.gov/pubmed/25052702"/>
<rdfs:comment>x has evidence y iff , x is an information content entity, material entity or process, and y supports either the existence of x, or the truth value of x.</rdfs:comment>
<rdfs:label>has evidence</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002614 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002614">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002616"/>
<obo:IAO_0000112>An instance of a sequence similarity evidence (ECO:0000044) that uses a homologous sequence UniProtKB:P12345 as support.</obo:IAO_0000112>
<obo:IAO_0000115>A relationship between a piece of evidence and an entity that plays a role in supporting that evidence.</obo:IAO_0000115>
<rdfs:comment>In the Gene Ontology association model, this corresponds to the With/From field</rdfs:comment>
<rdfs:label>is evidence with support from</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002616 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002616">
<rdfs:label>related via evidence or inference to</rdfs:label>
</owl:ObjectProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Classes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://ontology.phyloref.org/phyloref.owl#ExpectedNode -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#ExpectedNode">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000140"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
<owl:someValuesFrom>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/OBI_0302910"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:someValuesFrom rdf:resource="http://ontology.phyloref.org/phyloref.owl#Phyloreference"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:someValuesFrom>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<obo:IAO_0000115>The Node to which a Phyloreference is expected to resolve, i.e., which is expected to be an instance of it.</obo:IAO_0000115>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#PhylogeneticEvidence -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#PhylogeneticEvidence">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/ECO_0000000"/>
<obo:IAO_0000115>An evidence type that is based on a phylogenetic reconstruction.</obo:IAO_0000115>
<rdfs:label>phylogenetic evidence</rdfs:label>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#PhylogenyEvidence -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#PhylogenyEvidence">
<rdfs:subClassOf rdf:resource="http://ontology.phyloref.org/phyloref.owl#PhylogeneticEvidence"/>
<obo:IAO_0000115>A phylogenetic evidence that consists of a phylogeny, such as a phylogenetic tree or network.</obo:IAO_0000115>
<rdfs:label>phylogeny evidence</rdfs:label>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#Phyloreference -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#Phyloreference">
<rdfs:subClassOf>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CDAO_0000140"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000190"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000048"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</rdfs:subClassOf>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#PhyloreferenceUsingApomorphy -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#PhyloreferenceUsingApomorphy">
<rdfs:subClassOf>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#Phyloreference"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://ontology.phyloref.org/phyloref.owl#apomorphy"/>
<owl:someValuesFrom rdf:resource="http://semanticscience.org/resource/SIO_010056"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</rdfs:subClassOf>
<obo:IAO_0000115>Phyloreference that uses an apomorphy-based clade definition. An apomorphy-based clade definition designates the clade arising from the first node exhibiting a trait synapomorphic with a specified descendent (a.k.a. internal specifier).</obo:IAO_0000115>
<rdfs:label>Phyloreference using apomorphy</rdfs:label>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#PhyloreferenceUsingMaximumClade -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#PhyloreferenceUsingMaximumClade">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#Phyloreference"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://ontology.phyloref.org/phyloref.owl#excludes_TU"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
</owl:Restriction>
<owl:Restriction>
<owl:onProperty rdf:resource="http://ontology.phyloref.org/phyloref.owl#includes_TU"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<obo:IAO_0000115>Phyloreference that uses a maximum clade definition, such as a branch-based clade definition with excluded specifiers.</obo:IAO_0000115>
<rdfs:label>Phyloreference using maximum clade</rdfs:label>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#PhyloreferenceUsingMinimumClade -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#PhyloreferenceUsingMinimumClade">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#Phyloreference"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000149"/>
<owl:someValuesFrom>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<owl:Restriction>
<owl:onProperty rdf:resource="http://ontology.phyloref.org/phyloref.owl#excludes_TU"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
</owl:Restriction>
<owl:Restriction>
<owl:onProperty rdf:resource="http://ontology.phyloref.org/phyloref.owl#includes_TU"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000138"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:someValuesFrom>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<obo:IAO_0000115>Phyloreferences that uses a minimum clade definition, such as a last common ancestor definition or node-based definition.</obo:IAO_0000115>
<rdfs:label>Phyloreference using minimum clade</rdfs:label>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#PhyloreferenceWithReferenceTree -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#PhyloreferenceWithReferenceTree">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://ontology.phyloref.org/phyloref.owl#Phyloreference"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0002558"/>
<owl:someValuesFrom rdf:resource="http://ontology.phyloref.org/phyloref.owl#ReferencePhylogenyEvidence"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<obo:IAO_0000115>A phyloreference that has a reference tree provided as evidence.</obo:IAO_0000115>
</owl:Class>
<!-- http://ontology.phyloref.org/phyloref.owl#ReferencePhylogenyEvidence -->
<owl:Class rdf:about="http://ontology.phyloref.org/phyloref.owl#ReferencePhylogenyEvidence">
<rdfs:subClassOf rdf:resource="http://ontology.phyloref.org/phyloref.owl#PhylogenyEvidence"/>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CDAO_0000110"/>
<obo:IAO_0000115>A phylogeny evidence that is based on a reference phylogeny. If multiple phylogenies act as evidence for the same entity, then a reference phylogeny evidence will outweigh non-reference phylogenies in case of conflict.</obo:IAO_0000115>
<rdfs:label>reference phylogeny evidence</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/ECO_0000000 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/ECO_0000000">
<obo:IAO_0000115>A type of information that is used to support an assertion.</obo:IAO_0000115>
<rdfs:label>evidence</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/OBI_0302910 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0302910">
<obo:IAO_0000115>A process by which an event or an entity is described before it actually happens or is being discovered and identified.</obo:IAO_0000115>
<rdfs:label>prediction</rdfs:label>
</owl:Class>
<!-- http://semanticscience.org/resource/SIO_010056 -->
<owl:Class rdf:about="http://semanticscience.org/resource/SIO_010056">
<dc:description>A phenotype is an observable characteristic of an individual.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://semanticscience.org/ontology/sio.owl"/>
<rdfs:label>phenotype</rdfs:label>
</owl:Class>
<!-- http://www.w3.org/2002/07/owl#Thing -->
<owl:Class rdf:about="http://www.w3.org/2002/07/owl#Thing"/>
</rdf:RDF>
<!-- Generated by the OWL API (version 4.5.6) https://github.com/owlcs/owlapi -->