-----------------------------

Query = Gene and hasAssociation some Biochemical_Pathway
[[BR]]OCE(228ms) = ObjectIntersectionOf(<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Biochemical_Pathway>))
[[BR]]Selected UML Extraction(2922ms) = ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Selected Path: ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#EvidenceCode_interactionCollection_Interaction> <http://localhost:8080/owl/cabio4_2.owl#Interaction>) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Interaction_pathwayCollection_Pathway> <http://localhost:8080/owl/cabio4_2.owl#Pathway>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Evidence_evidenceCodeCollection_EvidenceCode> <http://localhost:8080/owl/cabio4_2.owl#EvidenceCode>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#GeneFunctionAssociation_evidence_Evidence> <http://localhost:8080/owl/cabio4_2.owl#Evidence>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Agent_geneFunctionAssociationCollection_GeneAgentAssociation> <http://localhost:8080/owl/cabio4_2.owl#GeneAgentAssociation>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#ClinicalTrialProtocol_agentCollection_Agent> <http://localhost:8080/owl/cabio4_2.owl#Agent>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Histopathology_clinicalTrialProtocolCollection_ClinicalTrialProtocol> <http://localhost:8080/owl/cabio4_2.owl#ClinicalTrialProtocol>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Gene_histopathologyCollection_Histopathology> <http://localhost:8080/owl/cabio4_2.owl#Histopathology>)))
[[BR]]Final Query:
<ns1:CQLQuery xmlns:ns1="http://CQL.caBIG/1/gov.nih.nci.cagrid.CQLQuery">
 <ns1:Target name="gov.nih.nci.cabio.domain.Gene">
  <ns1:Association name="gov.nih.nci.cabio.domain.Histopathology" roleName="histopathologyCollection">
   <ns1:Association name="gov.nih.nci.cabio.domain.ClinicalTrialProtocol" roleName="clinicalTrialProtocolCollection">
    <ns1:Association name="v31.agentCollection" roleName="agentCollection">
     <ns1:Association name="gov.nih.nci.cabio.domain.GeneAgentAssociation" roleName="geneFunctionAssociationCollection">
      <ns1:Association name="gov.nih.nci.cabio.domain.Evidence" roleName="evidence">
       <ns1:Association name="gov.nih.nci.cabio.domain.EvidenceCode" roleName="evidenceCodeCollection">
        <ns1:Association name="gov.nih.nci.cabio.pathways.Interaction" roleName="interactionCollection">
         <ns1:Association name="gov.nih.nci.cabio.domain.Pathway" roleName="pathwayCollection"/>
        </ns1:Association>
       </ns1:Association>
      </ns1:Association>
     </ns1:Association>
    </ns1:Association>
   </ns1:Association>
  </ns1:Association>
 </ns1:Target>
</ns1:CQLQuery>

-----------------------------

Query = Gene and hasAssociation some Biochemical_Pathway
[[BR]]OCE(228ms) = ObjectIntersectionOf(<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Biochemical_Pathway>))
[[BR]]Selected UML Extraction(2922ms) = ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Selected Path: ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#EvidenceCode_interactionCollection_Interaction> <http://localhost:8080/owl/cabio4_2.owl#PathwayReference>) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#PathwayReference_pathway_Pathway> <http://localhost:8080/owl/cabio4_2.owl#Pathway>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Evidence_evidenceCodeCollection_EvidenceCode> <http://localhost:8080/owl/cabio4_2.owl#EvidenceCode>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#GeneFunctionAssociation_evidence_Evidence> <http://localhost:8080/owl/cabio4_2.owl#Evidence>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Agent_geneFunctionAssociationCollection_GeneAgentAssociation> <http://localhost:8080/owl/cabio4_2.owl#GeneAgentAssociation>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#ClinicalTrialProtocol_agentCollection_Agent> <http://localhost:8080/owl/cabio4_2.owl#Agent>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Histopathology_clinicalTrialProtocolCollection_ClinicalTrialProtocol> <http://localhost:8080/owl/cabio4_2.owl#ClinicalTrialProtocol>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Gene_histopathologyCollection_Histopathology> <http://localhost:8080/owl/cabio4_2.owl#Histopathology>)))
[[BR]]Final Query:
<ns1:CQLQuery xmlns:ns1="http://CQL.caBIG/1/gov.nih.nci.cagrid.CQLQuery">
 <ns1:Target name="gov.nih.nci.cabio.domain.Gene">
  <ns1:Association name="gov.nih.nci.cabio.domain.Histopathology" roleName="histopathologyCollection">
   <ns1:Association name="gov.nih.nci.cabio.domain.ClinicalTrialProtocol" roleName="clinicalTrialProtocolCollection">
    <ns1:Association name="gov.nih.nci.cabio.domain.Agent" roleName="agentCollection">
     <ns1:Association name="gov.nih.nci.cabio.domain.GeneAgentAssociation" roleName="geneFunctionAssociationCollection">
      <ns1:Association name="gov.nih.nci.cabio.domain.Evidence" roleName="evidence">
       <ns1:Association name="gov.nih.nci.cabio.domain.EvidenceCode" roleName="evidenceCodeCollection">
        <ns1:Association name="gov.nih.nci.cabio.pathways.PathwayReference" roleName="interactionCollection">
         <ns1:Association name="gov.nih.nci.cabio.domain.Pathway" roleName="pathway"/>
        </ns1:Association>
       </ns1:Association>
      </ns1:Association>
     </ns1:Association>
    </ns1:Association>
   </ns1:Association>
  </ns1:Association>
 </ns1:Target>
</ns1:CQLQuery>

-----------------------------

Query = Gene and hasAssociation some Biochemical_Pathway
[[BR]]OCE(228ms) = ObjectIntersectionOf(<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Biochemical_Pathway>))
[[BR]]Selected UML Extraction(2922ms) = ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Selected Path: ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Evidence_interactionCollection_Interaction> <http://localhost:8080/owl/cabio4_2.owl#PathwayReference>) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#PathwayReference_pathway_Pathway> <http://localhost:8080/owl/cabio4_2.owl#Pathway>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#GeneFunctionAssociation_evidence_Evidence> <http://localhost:8080/owl/cabio4_2.owl#Evidence>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Agent_geneFunctionAssociationCollection_GeneAgentAssociation> <http://localhost:8080/owl/cabio4_2.owl#GeneAgentAssociation>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#ClinicalTrialProtocol_agentCollection_Agent> <http://localhost:8080/owl/cabio4_2.owl#Agent>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Histopathology_clinicalTrialProtocolCollection_ClinicalTrialProtocol> <http://localhost:8080/owl/cabio4_2.owl#ClinicalTrialProtocol>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Gene_histopathologyCollection_Histopathology> <http://localhost:8080/owl/cabio4_2.owl#Histopathology>)))
[[BR]]Final Query:
<ns1:CQLQuery xmlns:ns1="http://CQL.caBIG/1/gov.nih.nci.cagrid.CQLQuery">
 <ns1:Target name="gov.nih.nci.cabio.domain.Gene">
  <ns1:Association name="gov.nih.nci.cabio.domain.Histopathology" roleName="histopathologyCollection">
   <ns1:Association name="gov.nih.nci.cabio.domain.ClinicalTrialProtocol" roleName="clinicalTrialProtocolCollection">
    <ns1:Association name="gov.nih.nci.cabio.domain.Agent" roleName="agentCollection">
     <ns1:Association name="gov.nih.nci.cabio.domain.GeneAgentAssociation" roleName="geneFunctionAssociationCollection">
      <ns1:Association name="gov.nih.nci.cabio.domain.Evidence" roleName="evidence">
       <ns1:Association name="gov.nih.nci.cabio.pathways.PathwayReference" roleName="interactionCollection">
        <ns1:Association name="gov.nih.nci.cabio.domain.Pathway" roleName="pathway"/>
       </ns1:Association>
      </ns1:Association>
     </ns1:Association>
    </ns1:Association>
   </ns1:Association>
  </ns1:Association>
 </ns1:Target>
</ns1:CQLQuery>

-----------------------------

Query = Gene and hasAssociation some Biochemical_Pathway
[[BR]]OCE(228ms) = ObjectIntersectionOf(<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Biochemical_Pathway>))
[[BR]]Selected UML Extraction(2922ms) = ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Selected Path: ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Chromosome_taxon_Taxon> <http://localhost:8080/owl/cabio4_2.owl#Taxon>) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Taxon_pathwayCollection_Pathway> <http://localhost:8080/owl/cabio4_2.owl#Pathway>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Location_chromosome_Chromosome> <http://localhost:8080/owl/cabio4_2.owl#Chromosome>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#SNP_cytogeneticLocationCollection_SNPCytogeneticLocation> <http://localhost:8080/owl/cabio4_2.owl#SNPCytogeneticLocation>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#RelativeLocation_SNP_SNP> <http://localhost:8080/owl/cabio4_2.owl#SNP>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Gene_geneRelativeLocationCollection_GeneRelativeLocation> <http://localhost:8080/owl/cabio4_2.owl#GeneRelativeLocation>)))
[[BR]]Final Query:
<ns1:CQLQuery xmlns:ns1="http://CQL.caBIG/1/gov.nih.nci.cagrid.CQLQuery">
 <ns1:Target name="gov.nih.nci.cabio.domain.Gene">
  <ns1:Association name="gov.nih.nci.cabio.domain.GeneRelativeLocation" roleName="geneRelativeLocationCollection">
   <ns1:Association name="gov.nih.nci.cabio.domain.SNP" roleName="SNP">
    <ns1:Association name="gov.nih.nci.cabio.domain.SNPCytogeneticLocation" roleName="cytogeneticLocationCollection">
     <ns1:Association name="gov.nih.nci.cabio.domain.Chromosome" roleName="chromosome">
      <ns1:Association name="gov.nih.nci.cabio.domain.Taxon" roleName="taxon">
       <ns1:Association name="gov.nih.nci.cabio.domain.Pathway" roleName="pathwayCollection"/>
      </ns1:Association>
     </ns1:Association>
    </ns1:Association>
   </ns1:Association>
  </ns1:Association>
 </ns1:Target>
</ns1:CQLQuery>

-----------------------------

Query = Gene and hasAssociation some Biochemical_Pathway
[[BR]]OCE(228ms) = ObjectIntersectionOf(<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Biochemical_Pathway>))
[[BR]]Selected UML Extraction(2922ms) = ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Selected Path: ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectIntersectionOf(ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#EvidenceCode_interactionCollection_Interaction> <http://localhost:8080/owl/cabio4_2.owl#Interaction>) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Interaction_pathwayCollection_Pathway> <http://localhost:8080/owl/cabio4_2.owl#Pathway>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Evidence_evidenceCodeCollection_EvidenceCode> <http://localhost:8080/owl/cabio4_2.owl#EvidenceCode>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#GeneFunctionAssociation_evidence_Evidence> <http://localhost:8080/owl/cabio4_2.owl#Evidence>)) ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Gene_geneFunctionAssociationCollection_GeneFunctionAssociation> <http://localhost:8080/owl/cabio4_2.owl#GeneFunctionAssociation>)))
[[BR]]Final Query:
<ns1:CQLQuery xmlns:ns1="http://CQL.caBIG/1/gov.nih.nci.cagrid.CQLQuery">
 <ns1:Target name="gov.nih.nci.cabio.domain.Gene">
  <ns1:Association name="gov.nih.nci.cabio.domain.GeneFunctionAssociation" roleName="geneFunctionAssociationCollection">
   <ns1:Association name="gov.nih.nci.cabio.domain.Evidence" roleName="evidence">
    <ns1:Association name="gov.nih.nci.cabio.domain.EvidenceCode" roleName="evidenceCodeCollection">
     <ns1:Association name="gov.nih.nci.cabio.pathways.Interaction" roleName="interactionCollection">
      <ns1:Association name="gov.nih.nci.cabio.domain.Pathway" roleName="pathwayCollection"/>
     </ns1:Association>
    </ns1:Association>
   </ns1:Association>
  </ns1:Association>
 </ns1:Target>
</ns1:CQLQuery>

-----------------------------

Query = Gene and hasAssociation some Biochemical_Pathway
[[BR]]OCE(228ms) = ObjectIntersectionOf(<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Biochemical_Pathway>))
[[BR]]Selected UML Extraction(2922ms) = ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/domainmodel.owl#hasAssociation> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Selected Path: ObjectIntersectionOf(<http://localhost:8080/owl/cabio4_2.owl#Gene> ObjectSomeValuesFrom(<http://localhost:8080/owl/cabio4_2.owl#Taxon_pathwayCollection_Pathway> <http://localhost:8080/owl/cabio4_2.owl#Pathway>))
[[BR]]Final Query:
<ns1:CQLQuery xmlns:ns1="http://CQL.caBIG/1/gov.nih.nci.cagrid.CQLQuery">
 <ns1:Target name="gov.nih.nci.cabio.domain.Gene">
  <ns1:Association name="gov.nih.nci.cabio.domain.Pathway" roleName="pathwayCollection"/>
 </ns1:Target>
</ns1:CQLQuery>

-----------------------------