fr.curie.BiNoM.pathways.biopax
Interface bioSource

All Superinterfaces:

externalReferenceUtilityClass, com.ibm.adtech.jastor.Thing, utilityClass

All Known Implementing Classes:

bioSourceImpl

public interface bioSource
extends externalReferenceUtilityClass, com.ibm.adtech.jastor.Thing

Interface for bioSource ontology class
Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.

(URI: http://www.biopax.org/release/biopax-level2.owl#bioSource)

RDF Schema Standard Properties
comment : Definition: The biological source of an entity (e.g. protein, RNA or DNA). Some entities are considered source-neutral (e.g. small molecules), and the biological source of others can be deduced from their constituentss (e.g. complex, pathway). Examples: HeLa cells, human, and mouse liver tissue.^^http://www.w3.org/2001/XMLSchema#string

Field Summary

static com.hp.hpl.jena.rdf.model.Property	CELLTYPEProperty The Jena Property for CELLTYPE
static com.hp.hpl.jena.rdf.model.Property	NAMEProperty The Jena Property for NAME
static com.hp.hpl.jena.rdf.model.Property	TAXON_DASH_XREFProperty The Jena Property for TAXON_DASH_XREF
static com.hp.hpl.jena.rdf.model.Property	TISSUEProperty The Jena Property for TISSUE
static com.hp.hpl.jena.rdf.model.Resource	TYPE The rdf:type for this ontology class

Fields inherited from interface fr.curie.BiNoM.pathways.biopax.utilityClass

COMMENTProperty

Fields inherited from interface com.ibm.adtech.jastor.Thing

copyright

Method Summary

openControlledVocabulary	getCELLTYPE() Gets the 'CELLTYPE' property value
java.lang.String	getNAME() Gets the 'NAME' property value
unificationXref	getTAXON_DASH_XREF() Gets the 'TAXON_DASH_XREF' property value
openControlledVocabulary	getTISSUE() Gets the 'TISSUE' property value
openControlledVocabulary	setCELLTYPE() Sets the 'CELLTYPE' property value to an anonymous node
void	setCELLTYPE(openControlledVocabulary CELLTYPE) Sets the 'CELLTYPE' property value
openControlledVocabulary	setCELLTYPE(com.hp.hpl.jena.rdf.model.Resource resource) Sets the 'CELLTYPE' property value to the given resource, and add's rdf:type properties.
void	setNAME(java.lang.String NAME) Sets the 'NAME' property value
unificationXref	setTAXON_DASH_XREF() Sets the 'TAXON_DASH_XREF' property value to an anonymous node
unificationXref	setTAXON_DASH_XREF(com.hp.hpl.jena.rdf.model.Resource resource) Sets the 'TAXON_DASH_XREF' property value to the given resource, and add's rdf:type properties.
void	setTAXON_DASH_XREF(unificationXref TAXON_DASH_XREF) Sets the 'TAXON_DASH_XREF' property value
openControlledVocabulary	setTISSUE() Sets the 'TISSUE' property value to an anonymous node
void	setTISSUE(openControlledVocabulary TISSUE) Sets the 'TISSUE' property value
openControlledVocabulary	setTISSUE(com.hp.hpl.jena.rdf.model.Resource resource) Sets the 'TISSUE' property value to the given resource, and add's rdf:type properties.

Methods inherited from interface fr.curie.BiNoM.pathways.biopax.utilityClass

addCOMMENT, getCOMMENT, removeCOMMENT

Methods inherited from interface com.ibm.adtech.jastor.Thing

clearCache, isRDFType, listStatements, model, registerListener, removeStatements, resource, unregisterListener, uri

Field Detail

TYPE

static final com.hp.hpl.jena.rdf.model.Resource TYPE

The rdf:type for this ontology class

CELLTYPEProperty

static final com.hp.hpl.jena.rdf.model.Property CELLTYPEProperty

The Jena Property for CELLTYPE

(URI: http://www.biopax.org/release/biopax-level2.owl#CELLTYPE)

RDF Schema Standard Properties
comment : A cell type, e.g. 'HeLa'. This should reference a term in a controlled vocabulary of cell types.@en

TISSUEProperty

static final com.hp.hpl.jena.rdf.model.Property TISSUEProperty

The Jena Property for TISSUE

(URI: http://www.biopax.org/release/biopax-level2.owl#TISSUE)

RDF Schema Standard Properties
comment : An external controlled vocabulary of tissue types.@en

TAXON_DASH_XREFProperty

static final com.hp.hpl.jena.rdf.model.Property TAXON_DASH_XREFProperty

The Jena Property for TAXON_DASH_XREF

(URI: http://www.biopax.org/release/biopax-level2.owl#TAXON-XREF)

RDF Schema Standard Properties
comment : An xref to an organism taxonomy database, preferably NCBI taxon. This should be an instance of unificationXref, unless the organism is not in an existing database.^^http://www.w3.org/2001/XMLSchema#string

NAMEProperty

static final com.hp.hpl.jena.rdf.model.Property NAMEProperty

The Jena Property for NAME

(URI: http://www.biopax.org/release/biopax-level2.owl#NAME)

RDF Schema Standard Properties
comment : The preferred full name for this entity.@en

Method Detail

getCELLTYPE

openControlledVocabulary getCELLTYPE()
                                     throws com.ibm.adtech.jastor.JastorException

Gets the 'CELLTYPE' property value

Returns:

openControlledVocabulary

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

CELLTYPEProperty

setCELLTYPE

void setCELLTYPE(openControlledVocabulary CELLTYPE)
                 throws com.ibm.adtech.jastor.JastorException

Sets the 'CELLTYPE' property value

Parameters:

{@link - fr.curie.BiNoM.pathways.biopax.openControlledVocabulary}

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

CELLTYPEProperty

setCELLTYPE

openControlledVocabulary setCELLTYPE()
                                     throws com.ibm.adtech.jastor.JastorException

Sets the 'CELLTYPE' property value to an anonymous node

Returns:

openControlledVocabulary, the created value

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

CELLTYPEProperty

setCELLTYPE

openControlledVocabulary setCELLTYPE(com.hp.hpl.jena.rdf.model.Resource resource)
                                     throws com.ibm.adtech.jastor.JastorException

Sets the 'CELLTYPE' property value to the given resource, and add's rdf:type properties. This method is equivalent constructing a new instance of openControlledVocabulary with the factory. and calling setCELLTYPE(fr.curie.BiNoM.pathways.biopax.openControlledVocabulary CELLTYPE) The resource argument have rdf:type http://www.biopax.org/release/biopax-level2.owl#openControlledVocabulary. That is, this method should not be used as a shortcut for creating new objects in the model.

Parameters:

{@link - com.hp.hpl.jena.rdf.model.Resource} must not be be null.

Returns:

openControlledVocabulary, the newly created value

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

CELLTYPEProperty

getTISSUE

openControlledVocabulary getTISSUE()
                                   throws com.ibm.adtech.jastor.JastorException

Gets the 'TISSUE' property value

Returns:

openControlledVocabulary

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TISSUEProperty

setTISSUE

void setTISSUE(openControlledVocabulary TISSUE)
               throws com.ibm.adtech.jastor.JastorException

Sets the 'TISSUE' property value

Parameters:

{@link - fr.curie.BiNoM.pathways.biopax.openControlledVocabulary}

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TISSUEProperty

setTISSUE

openControlledVocabulary setTISSUE()
                                   throws com.ibm.adtech.jastor.JastorException

Sets the 'TISSUE' property value to an anonymous node

Returns:

openControlledVocabulary, the created value

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TISSUEProperty

setTISSUE

openControlledVocabulary setTISSUE(com.hp.hpl.jena.rdf.model.Resource resource)
                                   throws com.ibm.adtech.jastor.JastorException

Sets the 'TISSUE' property value to the given resource, and add's rdf:type properties. This method is equivalent constructing a new instance of openControlledVocabulary with the factory. and calling setTISSUE(fr.curie.BiNoM.pathways.biopax.openControlledVocabulary TISSUE) The resource argument have rdf:type http://www.biopax.org/release/biopax-level2.owl#openControlledVocabulary. That is, this method should not be used as a shortcut for creating new objects in the model.

Parameters:

{@link - com.hp.hpl.jena.rdf.model.Resource} must not be be null.

Returns:

openControlledVocabulary, the newly created value

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TISSUEProperty

getTAXON_DASH_XREF

unificationXref getTAXON_DASH_XREF()
                                   throws com.ibm.adtech.jastor.JastorException

Gets the 'TAXON_DASH_XREF' property value

Returns:

unificationXref

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TAXON_DASH_XREFProperty

setTAXON_DASH_XREF

void setTAXON_DASH_XREF(unificationXref TAXON_DASH_XREF)
                        throws com.ibm.adtech.jastor.JastorException

Sets the 'TAXON_DASH_XREF' property value

Parameters:

{@link - fr.curie.BiNoM.pathways.biopax.unificationXref}

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TAXON_DASH_XREFProperty

setTAXON_DASH_XREF

unificationXref setTAXON_DASH_XREF()
                                   throws com.ibm.adtech.jastor.JastorException

Sets the 'TAXON_DASH_XREF' property value to an anonymous node

Returns:

unificationXref, the created value

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TAXON_DASH_XREFProperty

setTAXON_DASH_XREF

unificationXref setTAXON_DASH_XREF(com.hp.hpl.jena.rdf.model.Resource resource)
                                   throws com.ibm.adtech.jastor.JastorException

Sets the 'TAXON_DASH_XREF' property value to the given resource, and add's rdf:type properties. This method is equivalent constructing a new instance of unificationXref with the factory. and calling setTAXON_DASH_XREF(fr.curie.BiNoM.pathways.biopax.unificationXref TAXON_DASH_XREF) The resource argument have rdf:type http://www.biopax.org/release/biopax-level2.owl#unificationXref. That is, this method should not be used as a shortcut for creating new objects in the model.

Parameters:

{@link - com.hp.hpl.jena.rdf.model.Resource} must not be be null.

Returns:

unificationXref, the newly created value

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

TAXON_DASH_XREFProperty

getNAME

java.lang.String getNAME()
                         throws com.ibm.adtech.jastor.JastorException

Gets the 'NAME' property value

Returns:

String

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

NAMEProperty

setNAME

void setNAME(java.lang.String NAME)
             throws com.ibm.adtech.jastor.JastorException

Sets the 'NAME' property value

Parameters:

{@link - java.lang.String}

Throws:

com.ibm.adtech.jastor.JastorException

See Also:

NAMEProperty