SBPAX3 SGMP Example 3 in OWL

This is an example of adding kinetic data to BioPAX using SBPAX3 for selective ion channel kinetics (Polycystin 2) based on data from Signaling Gateway Molecule Pages. Their BioPAX Level 3 export was taken, some sample fragments extracted, some URIs adjusted, some SBO terms guessed, and their data added using SBPAX3. Original data is here.

     18.0   conductance   conductance 0000257</bp:id> <bp:db>SBO</bp:db> </bp:UnificationXref> </bp:xref> </sbx3:SBVocabulary> </sbx3:sbTerm> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_12028_126"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Magnesium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >81.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_12028_33"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Calcium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >88.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_15143_1145"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Strontium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >94.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_15143_838"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Rubidium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >17.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_15143_837"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Lithium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >15.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_15143_155"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Potassium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >17.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> <rdf:Description rdf:about="http://www.signaling-gateway.org/biopax#ChannelIon_12028_822"> <sbx3:sbSubEntity> <sbx3:SBMeasurable rdf:about="http://example.org/sgmp/example3#conductance3Barium"> <sbx3:hasUnit rdf:resource="http://vcell.org/uome/list#Picosiemens"/> <sbx3:hasNumber rdf:datatype="http://www.w3.org/2001/XMLSchema#double" >104.0</sbx3:hasNumber> <sbx3:sbTerm rdf:resource="http://example.org/sgmp/example3#conductanceTerm"/> </sbx3:SBMeasurable> </sbx3:sbSubEntity> </rdf:Description> </rdf:RDF>