Agent
CaCORE::CaBIO::Agent - Perl extension for Agent.
ABSTRACT
The CaCORE::CaBIO::Agent is a Perl object representation of the CaCORE Agent object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Agent
The following are all the attributes of the Agent object and their data types:
- EVSId
-
data type:
string
- NSCNumber
-
data type:
long
- bigid
-
data type:
string
- comment
-
data type:
string
- id
-
data type:
long
- isCMAPAgent
-
data type:
boolean
- name
-
data type:
string
- source
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Agent
The following are all the objects that are associated with the Agent:
- Instance of "ClinicalTrialProtocol":
-
One to many assoication, use
getClinicalTrialProtocolCollection
to get a collection of associated ClinicalTrialProtocol. - Instance of "Target":
-
One to many assoication, use
getTargetCollection
to get a collection of associated Target.
Anomaly
CaCORE::CaBIO::Anomaly - Perl extension for Anomaly.
ABSTRACT
The CaCORE::CaBIO::Anomaly is a Perl object representation of the CaCORE Anomaly object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Anomaly
The following are all the attributes of the Anomaly object and their data types:
- bigid
-
data type:
string
- description
-
data type:
string
- id
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Anomaly
The following are all the objects that are associated with the Anomaly:
- Collection of "Histopathology":
-
Many to one assoication, use
getHistopathology
to get the associated Histopathology. - Instance of "OrganOntology":
-
One to many assoication, use
getOrganOntologyCollection
to get a collection of associated OrganOntology. - Instance of "Vocabulary":
-
One to many assoication, use
getVocabularyCollection
to get a collection of associated Vocabulary.
Chromosome
CaCORE::CaBIO::Chromosome - Perl extension for Chromosome.
ABSTRACT
The CaCORE::CaBIO::Chromosome is a Perl object representation of the CaCORE Chromosome object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Chromosome
The following are all the attributes of the Chromosome object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- number
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Chromosome
The following are all the objects that are associated with the Chromosome:
- Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Location":
-
One to many assoication, use
getLocationCollection
to get a collection of associated Location. - Collection of "Taxon":
-
Many to one assoication, use
getTaxon
to get the associated Taxon.
ClinicalTrialProtocol
CaCORE::CaBIO::ClinicalTrialProtocol - Perl extension for ClinicalTrialProtocol.
ABSTRACT
The CaCORE::CaBIO::ClinicalTrialProtocol is a Perl object representation of the CaCORE ClinicalTrialProtocol object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of ClinicalTrialProtocol
The following are all the attributes of the ClinicalTrialProtocol object and their data types:
- NIHAdminCode
-
data type:
string
- PDQIdentifier
-
data type:
string
- PIName
-
data type:
string
- bigid
-
data type:
string
- currentStatus
-
data type:
string
- currentStatusDate
-
data type:
dateTime
- documentNumber
-
data type:
string
- id
-
data type:
long
- leadOrganizationId
-
data type:
string
- leadOrganizationName
-
data type:
string
- participationType
-
data type:
string
- phase
-
data type:
string
- title
-
data type:
string
- treatmentFlag
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of ClinicalTrialProtocol
The following are all the objects that are associated with the ClinicalTrialProtocol:
- Instance of "Agent":
-
One to many assoication, use
getAgentCollection
to get a collection of associated Agent. - Instance of "DiseaseOntology":
-
One to many assoication, use
getDiseaseOntologyCollection
to get a collection of associated DiseaseOntology. - Instance of "Histopathology":
-
One to many assoication, use
getHistopathologyCollection
to get a collection of associated Histopathology. - Instance of "ProtocolAssociation":
-
One to many assoication, use
getProtocolAssociationCollection
to get a collection of associated ProtocolAssociation.
Clone
CaCORE::CaBIO::Clone - Perl extension for Clone.
ABSTRACT
The CaCORE::CaBIO::Clone is a Perl object representation of the CaCORE Clone object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Clone
The following are all the attributes of the Clone object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- insertSize
-
data type:
long
- name
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Clone
The following are all the objects that are associated with the Clone:
- Instance of "CloneRelativeLocation":
-
One to many assoication, use
getCloneRelativeLocationCollection
to get a collection of associated CloneRelativeLocation. - Collection of "Library":
-
Many to one assoication, use
getLibrary
to get the associated Library. - Instance of "NucleicAcidSequence":
-
One to many assoication, use
getNucleicAcidSequenceCollection
to get a collection of associated NucleicAcidSequence. - Instance of "Taxon":
-
One to many assoication, use
getTaxonCollection
to get a collection of associated Taxon.
CloneRelativeLocation
CaCORE::CaBIO::CloneRelativeLocation - Perl extension for CloneRelativeLocation.
ABSTRACT
The CaCORE::CaBIO::CloneRelativeLocation is a Perl object representation of the CaCORE CloneRelativeLocation object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of CloneRelativeLocation
The following are all the attributes of the CloneRelativeLocation object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of CloneRelativeLocation
The following are all the objects that are associated with the CloneRelativeLocation:
- Collection of "Clone":
-
Many to one assoication, use
getClone
to get the associated Clone. - Collection of "NucleicAcidSequence":
-
Many to one assoication, use
getNucleicAcidSequence
to get the associated NucleicAcidSequence.
Cytoband
CaCORE::CaBIO::Cytoband - Perl extension for Cytoband.
ABSTRACT
The CaCORE::CaBIO::Cytoband is a Perl object representation of the CaCORE Cytoband object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Cytoband
The following are all the attributes of the Cytoband object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Cytoband
The following are all the objects that are associated with the Cytoband:
- Collection of "PhysicalLocation":
-
Many to one assoication, use
getPhysicalLocation
to get the associated PhysicalLocation.
CytogeneticLocation
CaCORE::CaBIO::CytogeneticLocation - Perl extension for CytogeneticLocation.
ABSTRACT
The CaCORE::CaBIO::CytogeneticLocation is a Perl object representation of the CaCORE CytogeneticLocation object.
CytogeneticLocation extends from domain object "Location".
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of CytogeneticLocation
The following are all the attributes of the CytogeneticLocation object and their data types:
- bigid
-
data type:
string
- endCytobandLocId
-
data type:
long
- startCytobandLocId
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of CytogeneticLocation
The following are all the objects that are associated with the CytogeneticLocation:
- Collection of "EndCytoband":
-
Many to one assoication, use
getEndCytoband
to get the associated EndCytoband. - Collection of "StartCytoband":
-
Many to one assoication, use
getStartCytoband
to get the associated StartCytoband.
DiseaseOntology
CaCORE::CaBIO::DiseaseOntology - Perl extension for DiseaseOntology.
ABSTRACT
The CaCORE::CaBIO::DiseaseOntology is a Perl object representation of the CaCORE DiseaseOntology object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of DiseaseOntology
The following are all the attributes of the DiseaseOntology object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of DiseaseOntology
The following are all the objects that are associated with the DiseaseOntology:
- Instance of "ChildDiseaseOntologyRelationship":
-
One to many assoication, use
getChildDiseaseOntologyRelationshipCollection
to get a collection of associated ChildDiseaseOntologyRelationship. - Instance of "ClinicalTrialProtocol":
-
One to many assoication, use
getClinicalTrialProtocolCollection
to get a collection of associated ClinicalTrialProtocol. - Instance of "Histopathology":
-
One to many assoication, use
getHistopathologyCollection
to get a collection of associated Histopathology. - Instance of "ParentDiseaseOntologyRelationship":
-
One to many assoication, use
getParentDiseaseOntologyRelationshipCollection
to get a collection of associated ParentDiseaseOntologyRelationship.
DiseaseOntologyRelationship
CaCORE::CaBIO::DiseaseOntologyRelationship - Perl extension for DiseaseOntologyRelationship.
ABSTRACT
The CaCORE::CaBIO::DiseaseOntologyRelationship is a Perl object representation of the CaCORE DiseaseOntologyRelationship object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of DiseaseOntologyRelationship
The following are all the attributes of the DiseaseOntologyRelationship object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of DiseaseOntologyRelationship
The following are all the objects that are associated with the DiseaseOntologyRelationship:
- Collection of "ChildDiseaseOntology":
-
Many to one assoication, use
getChildDiseaseOntology
to get the associated ChildDiseaseOntology. - Collection of "ParentDiseaseOntology":
-
Many to one assoication, use
getParentDiseaseOntology
to get the associated ParentDiseaseOntology.
Gene
CaCORE::CaBIO::Gene - Perl extension for Gene.
ABSTRACT
The CaCORE::CaBIO::Gene is a Perl object representation of the CaCORE Gene object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Gene
The following are all the attributes of the Gene object and their data types:
- bigid
-
data type:
string
- clusterId
-
data type:
long
- fullName
-
data type:
string
- id
-
data type:
long
- symbol
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Gene
The following are all the objects that are associated with the Gene:
- Collection of "Chromosome":
-
Many to one assoication, use
getChromosome
to get the associated Chromosome. - Instance of "DatabaseCrossReference":
-
One to many assoication, use
getDatabaseCrossReferenceCollection
to get a collection of associated DatabaseCrossReference. - Instance of "GeneAlias":
-
One to many assoication, use
getGeneAliasCollection
to get a collection of associated GeneAlias. - Instance of "GeneOntology":
-
One to many assoication, use
getGeneOntologyCollection
to get a collection of associated GeneOntology. - Instance of "GeneRelativeLocation":
-
One to many assoication, use
getGeneRelativeLocationCollection
to get a collection of associated GeneRelativeLocation. - Instance of "GenericReporter":
-
One to many assoication, use
getGenericReporterCollection
to get a collection of associated GenericReporter. - Instance of "Histopathology":
-
One to many assoication, use
getHistopathologyCollection
to get a collection of associated Histopathology. - Instance of "HomologousAssociation":
-
One to many assoication, use
getHomologousAssociationCollection
to get a collection of associated HomologousAssociation. - Instance of "Library":
-
One to many assoication, use
getLibraryCollection
to get a collection of associated Library. - Instance of "Location":
-
One to many assoication, use
getLocationCollection
to get a collection of associated Location. - Instance of "NucleicAcidSequence":
-
One to many assoication, use
getNucleicAcidSequenceCollection
to get a collection of associated NucleicAcidSequence. - Instance of "OrganOntology":
-
One to many assoication, use
getOrganOntologyCollection
to get a collection of associated OrganOntology. - Instance of "Pathway":
-
One to many assoication, use
getPathwayCollection
to get a collection of associated Pathway. - Instance of "Protein":
-
One to many assoication, use
getProteinCollection
to get a collection of associated Protein. - Instance of "Target":
-
One to many assoication, use
getTargetCollection
to get a collection of associated Target. - Collection of "Taxon":
-
Many to one assoication, use
getTaxon
to get the associated Taxon.
GeneAlias
CaCORE::CaBIO::GeneAlias - Perl extension for GeneAlias.
ABSTRACT
The CaCORE::CaBIO::GeneAlias is a Perl object representation of the CaCORE GeneAlias object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of GeneAlias
The following are all the attributes of the GeneAlias object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of GeneAlias
The following are all the objects that are associated with the GeneAlias:
- Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene.
GeneOntology
CaCORE::CaBIO::GeneOntology - Perl extension for GeneOntology.
ABSTRACT
The CaCORE::CaBIO::GeneOntology is a Perl object representation of the CaCORE GeneOntology object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of GeneOntology
The following are all the attributes of the GeneOntology object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of GeneOntology
The following are all the objects that are associated with the GeneOntology:
- Instance of "ChildGeneOntologyRelationship":
-
One to many assoication, use
getChildGeneOntologyRelationshipCollection
to get a collection of associated ChildGeneOntologyRelationship. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "ParentGeneOntologyRelationship":
-
One to many assoication, use
getParentGeneOntologyRelationshipCollection
to get a collection of associated ParentGeneOntologyRelationship.
GeneOntologyRelationship
CaCORE::CaBIO::GeneOntologyRelationship - Perl extension for GeneOntologyRelationship.
ABSTRACT
The CaCORE::CaBIO::GeneOntologyRelationship is a Perl object representation of the CaCORE GeneOntologyRelationship object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of GeneOntologyRelationship
The following are all the attributes of the GeneOntologyRelationship object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- relationshipType
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of GeneOntologyRelationship
The following are all the objects that are associated with the GeneOntologyRelationship:
- Collection of "ChildGeneOntology":
-
Many to one assoication, use
getChildGeneOntology
to get the associated ChildGeneOntology. - Collection of "ParentGeneOntology":
-
Many to one assoication, use
getParentGeneOntology
to get the associated ParentGeneOntology.
GeneRelativeLocation
CaCORE::CaBIO::GeneRelativeLocation - Perl extension for GeneRelativeLocation.
ABSTRACT
The CaCORE::CaBIO::GeneRelativeLocation is a Perl object representation of the CaCORE GeneRelativeLocation object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of GeneRelativeLocation
The following are all the attributes of the GeneRelativeLocation object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of GeneRelativeLocation
The following are all the objects that are associated with the GeneRelativeLocation:
GenericArray
CaCORE::CaBIO::GenericArray - Perl extension for GenericArray.
ABSTRACT
The CaCORE::CaBIO::GenericArray is a Perl object representation of the CaCORE GenericArray object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of GenericArray
The following are all the attributes of the GenericArray object and their data types:
- arrayName
-
data type:
string
- bigid
-
data type:
string
- id
-
data type:
long
- platform
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of GenericArray
The following are all the objects that are associated with the GenericArray:
- Instance of "GenericReporter":
-
One to many assoication, use
getGenericReporterCollection
to get a collection of associated GenericReporter.
GenericReporter
CaCORE::CaBIO::GenericReporter - Perl extension for GenericReporter.
ABSTRACT
The CaCORE::CaBIO::GenericReporter is a Perl object representation of the CaCORE GenericReporter object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of GenericReporter
The following are all the attributes of the GenericReporter object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of GenericReporter
The following are all the objects that are associated with the GenericReporter:
- Collection of "Gene":
-
Many to one assoication, use
getGene
to get the associated Gene. - Instance of "GenericArray":
-
One to many assoication, use
getGenericArrayCollection
to get a collection of associated GenericArray.
Histopathology
CaCORE::CaBIO::Histopathology - Perl extension for Histopathology.
ABSTRACT
The CaCORE::CaBIO::Histopathology is a Perl object representation of the CaCORE Histopathology object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Histopathology
The following are all the attributes of the Histopathology object and their data types:
- ageOfOnset
-
data type:
string
- comments
-
data type:
string
- grossDescription
-
data type:
string
- id
-
data type:
long
- microscopicDescription
-
data type:
string
- relationalOperation
-
data type:
string
- survivalInfo
-
data type:
string
- tumorIncidenceRate
-
data type:
float
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Histopathology
The following are all the objects that are associated with the Histopathology:
- Instance of "Anomaly":
-
One to many assoication, use
getAnomalyCollection
to get a collection of associated Anomaly. - Instance of "ClinicalTrialProtocol":
-
One to many assoication, use
getClinicalTrialProtocolCollection
to get a collection of associated ClinicalTrialProtocol. - Collection of "DiseaseOntology":
-
Many to one assoication, use
getDiseaseOntology
to get the associated DiseaseOntology. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Library":
-
One to many assoication, use
getLibraryCollection
to get a collection of associated Library. - Instance of "Metastasis":
-
One to many assoication, use
getMetastasisCollection
to get a collection of associated Metastasis. - Collection of "OrganOntology":
-
Many to one assoication, use
getOrganOntology
to get the associated OrganOntology.
HomologousAssociation
CaCORE::CaBIO::HomologousAssociation - Perl extension for HomologousAssociation.
ABSTRACT
The CaCORE::CaBIO::HomologousAssociation is a Perl object representation of the CaCORE HomologousAssociation object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of HomologousAssociation
The following are all the attributes of the HomologousAssociation object and their data types:
- bigid
-
data type:
string
- homologousId
-
data type:
long
- id
-
data type:
long
- similarityPercentage
-
data type:
float
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of HomologousAssociation
The following are all the objects that are associated with the HomologousAssociation:
- Collection of "HomologousGene":
-
Many to one assoication, use
getHomologousGene
to get the associated HomologousGene.
Library
CaCORE::CaBIO::Library - Perl extension for Library.
ABSTRACT
The CaCORE::CaBIO::Library is a Perl object representation of the CaCORE Library object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Library
The following are all the attributes of the Library object and their data types:
- bigid
-
data type:
string
- cloneProducer
-
data type:
string
- cloneVector
-
data type:
string
- cloneVectorType
-
data type:
string
- clonesToDate
-
data type:
long
- creationDate
-
data type:
dateTime
- description
-
data type:
string
- id
-
data type:
long
- keyword
-
data type:
string
- labHost
-
data type:
string
- name
-
data type:
string
- rsite1
-
data type:
string
- rsite2
-
data type:
string
- sequencesToDate
-
data type:
long
- type
-
data type:
string
- uniGeneId
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Library
The following are all the objects that are associated with the Library:
- Instance of "Clone":
-
One to many assoication, use
getCloneCollection
to get a collection of associated Clone. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Histopathology":
-
One to many assoication, use
getHistopathologyCollection
to get a collection of associated Histopathology. - Collection of "Protocol":
-
Many to one assoication, use
getProtocol
to get the associated Protocol. - Collection of "Tissue":
-
Many to one assoication, use
getTissue
to get the associated Tissue.
Location
CaCORE::CaBIO::Location - Perl extension for Location.
ABSTRACT
The CaCORE::CaBIO::Location is a Perl object representation of the CaCORE Location object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Location
The following are all the attributes of the Location object and their data types:
- id
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Location
The following are all the objects that are associated with the Location:
- Collection of "SNP":
-
Many to one assoication, use
getSNP
to get the associated SNP. - Collection of "Chromosome":
-
Many to one assoication, use
getChromosome
to get the associated Chromosome. - Collection of "Gene":
-
Many to one assoication, use
getGene
to get the associated Gene. - Collection of "NucleicAcidSequence":
-
Many to one assoication, use
getNucleicAcidSequence
to get the associated NucleicAcidSequence.
NucleicAcidSequence
CaCORE::CaBIO::NucleicAcidSequence - Perl extension for NucleicAcidSequence.
ABSTRACT
The CaCORE::CaBIO::NucleicAcidSequence is a Perl object representation of the CaCORE NucleicAcidSequence object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of NucleicAcidSequence
The following are all the attributes of the NucleicAcidSequence object and their data types:
- accessionNumber
-
data type:
string
- accessionNumberVersion
-
data type:
string
- bigid
-
data type:
string
- id
-
data type:
long
- length
-
data type:
long
- type
-
data type:
string
- value
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of NucleicAcidSequence
The following are all the objects that are associated with the NucleicAcidSequence:
- Collection of "CloneRelativeLocation":
-
Many to one assoication, use
getCloneRelativeLocation
to get the associated CloneRelativeLocation. - Instance of "DatabaseCrossReference":
-
One to many assoication, use
getDatabaseCrossReferenceCollection
to get a collection of associated DatabaseCrossReference. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Location":
-
One to many assoication, use
getLocationCollection
to get a collection of associated Location.
OrganOntology
CaCORE::CaBIO::OrganOntology - Perl extension for OrganOntology.
ABSTRACT
The CaCORE::CaBIO::OrganOntology is a Perl object representation of the CaCORE OrganOntology object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of OrganOntology
The following are all the attributes of the OrganOntology object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of OrganOntology
The following are all the objects that are associated with the OrganOntology:
- Instance of "Anomaly":
-
One to many assoication, use
getAnomalyCollection
to get a collection of associated Anomaly. - Instance of "ChildOrganOntologyRelationship":
-
One to many assoication, use
getChildOrganOntologyRelationshipCollection
to get a collection of associated ChildOrganOntologyRelationship. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Histopathology":
-
One to many assoication, use
getHistopathologyCollection
to get a collection of associated Histopathology. - Instance of "ParentOrganOntologyRelationship":
-
One to many assoication, use
getParentOrganOntologyRelationshipCollection
to get a collection of associated ParentOrganOntologyRelationship.
OrganOntologyRelationship
CaCORE::CaBIO::OrganOntologyRelationship - Perl extension for OrganOntologyRelationship.
ABSTRACT
The CaCORE::CaBIO::OrganOntologyRelationship is a Perl object representation of the CaCORE OrganOntologyRelationship object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of OrganOntologyRelationship
The following are all the attributes of the OrganOntologyRelationship object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of OrganOntologyRelationship
The following are all the objects that are associated with the OrganOntologyRelationship:
- Collection of "ChildOrganOntology":
-
Many to one assoication, use
getChildOrganOntology
to get the associated ChildOrganOntology. - Collection of "ParentOrganOntology":
-
Many to one assoication, use
getParentOrganOntology
to get the associated ParentOrganOntology.
Pathway
CaCORE::CaBIO::Pathway - Perl extension for Pathway.
ABSTRACT
The CaCORE::CaBIO::Pathway is a Perl object representation of the CaCORE Pathway object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Pathway
The following are all the attributes of the Pathway object and their data types:
- bigid
-
data type:
string
- description
-
data type:
string
- diagram
-
data type:
string
- displayValue
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Pathway
The following are all the objects that are associated with the Pathway:
- Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Histopathology":
-
One to many assoication, use
getHistopathologyCollection
to get a collection of associated Histopathology. - Collection of "Taxon":
-
Many to one assoication, use
getTaxon
to get the associated Taxon.
PhysicalLocation
CaCORE::CaBIO::PhysicalLocation - Perl extension for PhysicalLocation.
ABSTRACT
The CaCORE::CaBIO::PhysicalLocation is a Perl object representation of the CaCORE PhysicalLocation object.
PhysicalLocation extends from domain object "Location".
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of PhysicalLocation
The following are all the attributes of the PhysicalLocation object and their data types:
- chromosomalEndPosition
-
data type:
long
- chromosomalStartPosition
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of PhysicalLocation
The following are all the objects that are associated with the PhysicalLocation:
- Instance of "Cytoband":
-
One to many assoication, use
getCytobandCollection
to get a collection of associated Cytoband.
PopulationFrequency
CaCORE::CaBIO::PopulationFrequency - Perl extension for PopulationFrequency.
ABSTRACT
The CaCORE::CaBIO::PopulationFrequency is a Perl object representation of the CaCORE PopulationFrequency object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of PopulationFrequency
The following are all the attributes of the PopulationFrequency object and their data types:
- bigid
-
data type:
string
- ethnicity
-
data type:
string
- id
-
data type:
long
- majorAllele
-
data type:
string
- majorFrequency
-
data type:
double
- minorAllele
-
data type:
string
- minorFrequency
-
data type:
double
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of PopulationFrequency
The following are all the objects that are associated with the PopulationFrequency:
- Collection of "SNP":
-
Many to one assoication, use
getSNP
to get the associated SNP.
Protein
CaCORE::CaBIO::Protein - Perl extension for Protein.
ABSTRACT
The CaCORE::CaBIO::Protein is a Perl object representation of the CaCORE Protein object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Protein
The following are all the attributes of the Protein object and their data types:
- bigid
-
data type:
string
- copyrightStatement
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
- primaryAccession
-
data type:
string
- uniProtCode
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Protein
The following are all the objects that are associated with the Protein:
- Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Keywords":
-
One to many assoication, use
getKeywordsCollection
to get a collection of associated Keywords. - Instance of "ProteinAlias":
-
One to many assoication, use
getProteinAliasCollection
to get a collection of associated ProteinAlias. - Collection of "ProteinSequence":
-
Many to one assoication, use
getProteinSequence
to get the associated ProteinSequence. - Instance of "SecondaryAccession":
-
One to many assoication, use
getSecondaryAccessionCollection
to get a collection of associated SecondaryAccession. - Instance of "Taxon":
-
One to many assoication, use
getTaxonCollection
to get a collection of associated Taxon.
ProteinAlias
CaCORE::CaBIO::ProteinAlias - Perl extension for ProteinAlias.
ABSTRACT
The CaCORE::CaBIO::ProteinAlias is a Perl object representation of the CaCORE ProteinAlias object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of ProteinAlias
The following are all the attributes of the ProteinAlias object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of ProteinAlias
The following are all the objects that are associated with the ProteinAlias:
- Instance of "Protein":
-
One to many assoication, use
getProteinCollection
to get a collection of associated Protein.
ProteinSequence
CaCORE::CaBIO::ProteinSequence - Perl extension for ProteinSequence.
ABSTRACT
The CaCORE::CaBIO::ProteinSequence is a Perl object representation of the CaCORE ProteinSequence object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of ProteinSequence
The following are all the attributes of the ProteinSequence object and their data types:
- bigid
-
data type:
string
- checkSum
-
data type:
string
- id
-
data type:
long
- length
-
data type:
long
- molecularWeightInDaltons
-
data type:
double
- value
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of ProteinSequence
The following are all the objects that are associated with the ProteinSequence:
- Collection of "Protein":
-
Many to one assoication, use
getProtein
to get the associated Protein.
Protocol
CaCORE::CaBIO::Protocol - Perl extension for Protocol.
ABSTRACT
The CaCORE::CaBIO::Protocol is a Perl object representation of the CaCORE Protocol object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Protocol
The following are all the attributes of the Protocol object and their data types:
- bigid
-
data type:
string
- description
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Protocol
The following are all the objects that are associated with the Protocol:
- Instance of "Library":
-
One to many assoication, use
getLibraryCollection
to get a collection of associated Library. - Instance of "Tissue":
-
One to many assoication, use
getTissueCollection
to get a collection of associated Tissue.
ProtocolAssociation
CaCORE::CaBIO::ProtocolAssociation - Perl extension for ProtocolAssociation.
ABSTRACT
The CaCORE::CaBIO::ProtocolAssociation is a Perl object representation of the CaCORE ProtocolAssociation object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of ProtocolAssociation
The following are all the attributes of the ProtocolAssociation object and their data types:
- CTEPNAME
-
data type:
string
- IMTCODE
-
data type:
long
- bigid
-
data type:
string
- diseaseCategory
-
data type:
string
- diseaseSubCategory
-
data type:
string
- id
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of ProtocolAssociation
The following are all the objects that are associated with the ProtocolAssociation:
- Collection of "ClinicalTrialProtocol":
-
Many to one assoication, use
getClinicalTrialProtocol
to get the associated ClinicalTrialProtocol. - Collection of "DiseaseOntology":
-
Many to one assoication, use
getDiseaseOntology
to get the associated DiseaseOntology.
SNP
CaCORE::CaBIO::SNP - Perl extension for SNP.
ABSTRACT
The CaCORE::CaBIO::SNP is a Perl object representation of the CaCORE SNP object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of SNP
The following are all the attributes of the SNP object and their data types:
- DBSNPID
-
data type:
string
- alleleA
-
data type:
string
- alleleB
-
data type:
string
- bigid
-
data type:
string
- id
-
data type:
long
- validationStatus
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of SNP
The following are all the objects that are associated with the SNP:
- Instance of "DatabaseCrossReference":
-
One to many assoication, use
getDatabaseCrossReferenceCollection
to get a collection of associated DatabaseCrossReference. - Instance of "GeneRelativeLocation":
-
One to many assoication, use
getGeneRelativeLocationCollection
to get a collection of associated GeneRelativeLocation. - Instance of "Location":
-
One to many assoication, use
getLocationCollection
to get a collection of associated Location. - Instance of "PopulationFrequency":
-
One to many assoication, use
getPopulationFrequencyCollection
to get a collection of associated PopulationFrequency.
Target
CaCORE::CaBIO::Target - Perl extension for Target.
ABSTRACT
The CaCORE::CaBIO::Target is a Perl object representation of the CaCORE Target object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Target
The following are all the attributes of the Target object and their data types:
- bigid
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Target
The following are all the objects that are associated with the Target:
- Instance of "Agent":
-
One to many assoication, use
getAgentCollection
to get a collection of associated Agent. - Instance of "Anomaly":
-
One to many assoication, use
getAnomalyCollection
to get a collection of associated Anomaly. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene.
Taxon
CaCORE::CaBIO::Taxon - Perl extension for Taxon.
ABSTRACT
The CaCORE::CaBIO::Taxon is a Perl object representation of the CaCORE Taxon object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Taxon
The following are all the attributes of the Taxon object and their data types:
- abbreviation
-
data type:
string
- bigid
-
data type:
string
- commonName
-
data type:
string
- ethnicityStrain
-
data type:
string
- id
-
data type:
long
- scientificName
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Taxon
The following are all the objects that are associated with the Taxon:
- Instance of "Chromosome":
-
One to many assoication, use
getChromosomeCollection
to get a collection of associated Chromosome. - Instance of "Clone":
-
One to many assoication, use
getCloneCollection
to get a collection of associated Clone. - Instance of "Gene":
-
One to many assoication, use
getGeneCollection
to get a collection of associated Gene. - Instance of "Pathway":
-
One to many assoication, use
getPathwayCollection
to get a collection of associated Pathway. - Instance of "Protein":
-
One to many assoication, use
getProteinCollection
to get a collection of associated Protein. - Instance of "Tissue":
-
One to many assoication, use
getTissueCollection
to get a collection of associated Tissue.
Tissue
CaCORE::CaBIO::Tissue - Perl extension for Tissue.
ABSTRACT
The CaCORE::CaBIO::Tissue is a Perl object representation of the CaCORE Tissue object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Tissue
The following are all the attributes of the Tissue object and their data types:
- cellLine
-
data type:
string
- cellType
-
data type:
string
- description
-
data type:
string
- developmentalStage
-
data type:
string
- histology
-
data type:
string
- id
-
data type:
long
- name
-
data type:
string
- organ
-
data type:
string
- sex
-
data type:
string
- supplier
-
data type:
string
- type
-
data type:
string
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Tissue
The following are all the objects that are associated with the Tissue:
- Instance of "Library":
-
One to many assoication, use
getLibraryCollection
to get a collection of associated Library. - Collection of "Protocol":
-
Many to one assoication, use
getProtocol
to get the associated Protocol. - Collection of "Taxon":
-
Many to one assoication, use
getTaxon
to get the associated Taxon.
Vocabulary
CaCORE::CaBIO::Vocabulary - Perl extension for Vocabulary.
ABSTRACT
The CaCORE::CaBIO::Vocabulary is a Perl object representation of the CaCORE Vocabulary object.
SYNOPSIS
See CaCORE::ApplicationService.
DESCRIPTION
ATTRIBUTES of Vocabulary
The following are all the attributes of the Vocabulary object and their data types:
- bigid
-
data type:
string
- coreTerm
-
data type:
string
- generalTerm
-
data type:
string
- id
-
data type:
long
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
ASSOCIATIONS of Vocabulary
The following are all the objects that are associated with the Vocabulary:
- Instance of "Anomaly":
-
One to many assoication, use
getAnomalyCollection
to get a collection of associated Anomaly.
SUPPORT
Please do not contact author directly. Send email to ncicb@pop.nci.nih.gov to request support or report a bug.
AUTHOR
Shan Jiang <jiangs@mail.nih.gov>
COPYRIGHT AND LICENSE
The CaCORE Software License, Version 1.0
Copyright 2001-2005 SAIC. This software was developed in conjunction with the National Cancer Institute, and so to the extent government employees are co-authors, any rights in such works shall be subject to Title 17 of the United States Code, section 105. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:
Redistributions of source code must retain the above copyright notice, this list of conditions and the disclaimer of Article 5, below. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the disclaimer of Article 5 in the documentation and/or other materials provided with the distribution.
The end-user documentation included with the redistribution, if any, must include the following acknowledgment: "This product includes software developed by SAIC and the National Cancer Institute." If no such end-user documentation is to be included, this acknowledgment shall appear in the software itself, wherever such third-party acknowledgments normally appear.
The names "The National Cancer Institute", "NCI" and "SAIC" must not be used to endorse or promote products derived from this software. This license does not authorize the licensee to use any trademarks owned by either NCI or SAIC.
This license does not authorize or prohibit the incorporation of this software into any third party proprietary programs. Licensee is expressly made responsible for obtaining any permission required to incorporate this software into third party proprietary programs and for informing licensee's end-users of their obligation to secure any required permissions before incorporating this software into third party proprietary software programs.
THIS SOFTWARE IS PROVIDED "AS IS," AND ANY EXPRESSED OR IMPLIED WARRANTIES, (INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY, NON-INFRINGEMENT AND FITNESS FOR A PARTICULAR PURPOSE) ARE DISCLAIMED. IN NO EVENT SHALL THE NATIONAL CANCER INSTITUTE, SAIC, OR THEIR AFFILIATES BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.