<?xml version="1.0"?>
<rdf:RDF
    xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
    xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
    xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
    xmlns:owl="http://www.w3.org/2002/07/owl#"
    xmlns:biomanta="http://biomanta.sourceforge.net/2007/07/biomanta_extension_02.owl#"
    xmlns:psimi="http://biomanta.sourceforge.net/2007/07/psimi_instance_edit.owl#"
    xmlns:celltype="http://biomanta.sourceforge.net/2007/07/celltype_instance_edit.owl#"
    xmlns:go="http://biomanta.sourceforge.net/2007/07/gotemp#"
    xmlns:bp="http://www.biopax.org/release/biopax-level2.owl#"
  xml:base="http://biomanta.sourceforge.net/2007/07/biomanta_extension_02.owl">
  <owl:Ontology rdf:about="">
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >This is version 1.0 of the BioMANTA Extension Ontology, currently under development by the BioMANTA research group</rdfs:comment>
    <owl:imports rdf:resource="http://www.biopax.org/release/biopax-level2.owl" />
    <owl:imports rdf:resource="http://biomanta.sourceforge.net/2007/07/celltype_instance_edit.owl" />
    <owl:imports rdf:resource="http://biomanta.sourceforge.net/2007/07/psimi_instance_edit.owl" />
    <owl:imports rdf:resource="http://biomanta.sourceforge.net/2007/07/gotemp.owl" />
  </owl:Ontology>

  <owl:Class rdf:ID="ExperimentalObservation">
    <owl:disjointWith>
      <owl:Class rdf:ID="UnspecifiedObservation"/>
    </owl:disjointWith>
    <owl:disjointWith>
      <owl:Class rdf:ID="PredictedObservation"/>
    </owl:disjointWith>
    <owl:disjointWith>
      <owl:Class rdf:ID="InferedObservation"/>
    </owl:disjointWith>
    <rdfs:subClassOf>
      <owl:Class rdf:ID="Observation"/>
    </rdfs:subClassOf>
  </owl:Class>

  <owl:Class rdf:about="#UnspecifiedObservation">
    <owl:disjointWith>
      <owl:Class rdf:about="#PredictedObservation"/>
    </owl:disjointWith>
    <owl:disjointWith>
      <owl:Class rdf:about="#InferedObservation"/>
    </owl:disjointWith>
    <owl:disjointWith rdf:resource="#ExperimentalObservation"/>
    <rdfs:subClassOf rdf:resource="#Observation"/>
  </owl:Class>

  <owl:Class rdf:about="#InferedObservation">
    <rdfs:subClassOf rdf:resource="#Observation"/>
    <owl:disjointWith rdf:resource="#UnspecifiedObservation"/>
    <owl:disjointWith>
      <owl:Class rdf:about="#PredictedObservation"/>
    </owl:disjointWith>
    <owl:disjointWith rdf:resource="#ExperimentalObservation"/>
  </owl:Class>

  <owl:Class rdf:about="#PredictedObservation">
    <rdfs:subClassOf rdf:resource="#Observation"/>
    <owl:disjointWith rdf:resource="#UnspecifiedObservation"/>
    <owl:disjointWith rdf:resource="#InferedObservation"/>
    <owl:disjointWith rdf:resource="#ExperimentalObservation"/>
  </owl:Class>

  <owl:ObjectProperty rdf:ID="sourceOfData">
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >this is used to indicate the source of the data, for example, the identity of the data in a third party resource. The rage of this property is bp:unificationXref</rdfs:comment>
    <rdfs:domain rdf:resource="#Observation"/>
    <rdfs:range rdf:resource="http://www.biopax.org/release/biopax-level2.owl#unificationXref"/>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="observedCellType">
    <rdfs:domain rdf:resource="#ExperimentalObservation"/>
    <rdfs:range rdf:resource="http://biomanta.sourceforge.net/2007/07/celltype_instance_edit.owl#cell_CL_0000000"/>
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >The range of biomanta:observedCellType is the CellType ontology
This property asks for the cell type in which the experimental observation occurred, for example, while the proteins may be mouse proteins, was the experiment done in a human cell line?</rdfs:comment>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="observedInteraction">
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >Indicates what interaction was observed in this observation (experiment)The range of biomanta:observedInteraction is a value from bp:interaction</rdfs:comment>
    <rdfs:domain rdf:resource="#Observation"/>
    <rdfs:range rdf:resource="http://www.biopax.org/release/biopax-level2.owl#interaction"/>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="inferencingMethod">
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >the range of biomanta:inferencingMethod is a value from psi-mi:inference_MI_0362</rdfs:comment>
    <rdfs:domain rdf:resource="#InferedObservation"/>
    <rdfs:range rdf:resource="http://biomanta.sourceforge.net/2007/07/psi-mi_instance_edit.owl#inference_MI_0362"/>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="experimentalMethod">
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >the range of biomanta:experimentalMethod is a value from  psi-mi:experimental_interaction_detection_MI_0045</rdfs:comment>
    <rdfs:domain rdf:resource="#ExperimentalObservation"/>
    <rdfs:range rdf:resource="http://biomanta.sourceforge.net/2007/07/psi-mi_instance_edit.owl#experimental_interaction_detection_MI_0045"/>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="referenceForObservation">
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >The range of biomanta:referenceForObservation is bp:publicationXref</rdfs:comment>
    <rdfs:domain rdf:resource="#Observation"/>
    <rdfs:range rdf:resource="http://www.biopax.org/release/biopax-level2.owl#publicationXref"/>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="predictionMethod">
    <rdfs:domain rdf:resource="#PredictedObservation"/>
    <rdfs:range rdf:resource="http://biomanta.sourceforge.net/2007/07/psi-mi_instance_edit.owl#interaction_prediction_MI_0063"/>
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >the range of biomanta:predictionMethod is a value from psi-mi:interaction_prediction_MI_0063</rdfs:comment>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="unspecifiedMethod">
    <rdfs:domain rdf:resource="#UnspecifiedObservation"/>
    <rdfs:range rdf:resource="http://biomanta.sourceforge.net/2007/07/psi-mi_instance_edit.owl#unspecified_method_MI_0686"/>
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >the range of biomanta:unspecifiedMethod is a value from psi-mi:unspecified_method_MI_0686</rdfs:comment>
  </owl:ObjectProperty>

  <owl:ObjectProperty rdf:ID="subcellularLocation">
    <rdfs:domain rdf:resource="http://www.biopax.org/release/biopax-level2.owl#entity"/>
    <rdfs:range rdf:resource="http://biomanta.sourceforge.net/2007/07/gotemp#cellular_component"/>
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >the domain of biomanta:subcellularLocation is bp:entity, while the range is an instance from Gene Ontology's cellular component heirarchy</rdfs:comment>
  </owl:ObjectProperty>

  <owl:DatatypeProperty rdf:ID="URL">
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#anyURI"/>
    <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string"
    >The domain of the property biomanta:URL is any owl:Thing; the datatype range is http://www.w3.org/2001/XMLSchema#anyURI, where anyURI has a value which is the URL for the interaction in the source database</rdfs:comment>
  </owl:DatatypeProperty>

</rdf:RDF>

<!-- Created with Protege (with OWL Plugin 3.2.1, Build 365)  http://protege.stanford.edu AND modified by Melissa Davis m.davis@imb.uq.edu.au -->
