Package ubic.gemma.persistence.service.association

Interface Gene2GOAssociationDao

All Superinterfaces:

BaseDao<Gene2GOAssociation>

All Known Implementing Classes:

Gene2GOAssociationDaoImpl

public interface Gene2GOAssociationDao
extends BaseDao<Gene2GOAssociation>

See Also:

• Gene2GOAssociation

Method Summary

Modifier and Type	Method	Description
Gene2GOAssociation	find(Gene2GOAssociation gene2GOAssociation)	Does a look up for the given entity in the persistent storage, usually looking for a specific identifier ( either id or a string property).
Collection<Gene2GOAssociation>	findAssociationByGene(Gene gene)
Collection<Gene2GOAssociation>	findAssociationByGenes(Collection<Gene> genes)
Collection<Characteristic>	findByGene(Gene gene)
Map<Gene,Collection<Characteristic>>	findByGenes(Collection<Gene> genes)
Collection<Gene>	findByGoTermUris(Collection<String> uris)
Collection<Gene>	findByGoTermUris(Collection<String> uris, Taxon taxon)
Map<Taxon,Collection<Gene>>	findByGoTermUrisPerTaxon(Collection<String> uris)
Gene2GOAssociation	findOrCreate(Gene2GOAssociation gene2GOAssociation)	Calls the find method, and if this method returns null, creates a new instance in the persistent storage.
int	removeAll()

Methods inherited from interface ubic.gemma.persistence.service.BaseDao

countAll, create, create, getElementClass, getIdentifierPropertyName, load, load, loadAll, loadReference, loadReference, reload, reload, remove, remove, remove, save, save, streamAll, streamAll, update, update

Method Details

find

Gene2GOAssociation find(Gene2GOAssociation gene2GOAssociation)

Description copied from interface: BaseDao

Does a look up for the given entity in the persistent storage, usually looking for a specific identifier ( either id or a string property).

Specified by:

find in interface BaseDao<Gene2GOAssociation>

Parameters:

gene2GOAssociation - the entity to look for.

Returns:

an entity that was found in the persistent storage, or null if no such entity was found.

findOrCreate

Gene2GOAssociation findOrCreate(Gene2GOAssociation gene2GOAssociation)

Description copied from interface: BaseDao

Calls the find method, and if this method returns null, creates a new instance in the persistent storage.

Specified by:

findOrCreate in interface BaseDao<Gene2GOAssociation>

Parameters:

gene2GOAssociation - the entity to look for and persist if not found.

Returns:

the given entity, guaranteed to be representing an entity present in the persistent storage.

findAssociationByGene

Collection<Gene2GOAssociation> findAssociationByGene(Gene gene)

findAssociationByGenes

Collection<Gene2GOAssociation> findAssociationByGenes(Collection<Gene> genes)

findByGene

Collection<Characteristic> findByGene(Gene gene)

findByGenes

Map<Gene,Collection<Characteristic>> findByGenes(Collection<Gene> genes)

findByGoTermUris

Collection<Gene> findByGoTermUris(Collection<String> uris)

findByGoTermUris

Collection<Gene> findByGoTermUris(Collection<String> uris,
 Taxon taxon)

findByGoTermUrisPerTaxon

Map<Taxon,Collection<Gene>> findByGoTermUrisPerTaxon(Collection<String> uris)

removeAll

int removeAll()