Package ubic.gemma.model.genome

Class Gene

  • All Implemented Interfaces:
    Describable, Identifiable
    @Indexed
public class Gene
extends ChromosomeFeature
    Represents a functionally transcribed unit in the genome, recognized by other databases (NCBI, Ensembl).

    • Constructor Detail

      • Gene

        public Gene()
        No-arg constructor added to satisfy javabean contract

    • Method Detail

      • equals

        public boolean equals​(Object object)
        Description copied from class: AbstractIdentifiable
        Important note: Two objects with the same class and non-null ID must be considered equal. If one or both IDs are nulls, the rest of the state can be used to determine equality.
        Specified by:
        equals in class AbstractIdentifiable

      • getName

        @Field
public String getName()
        Description copied from interface: Describable
        Obtain the name of an object is a possibly ambiguous human-readable identifier that need not be an external database reference.
        Specified by:
        getName in interface Describable
        Overrides:
        getName in class AbstractDescribable

      • getAliases

        @IndexedEmbedded
public Set<GeneAlias> getAliases()

      • setAliases

        public void setAliases​(Set<GeneAlias> aliases)

      • getEnsemblId

        @Nullable
@Field(analyze=NO)
public String getEnsemblId()
        Returns:
        An Ensembl ID for the gene.

      • setMultifunctionality

        public void setMultifunctionality​(Multifunctionality multifunctionality)

      • getNcbiGeneId

        @Field(analyze=NO)
public Integer getNcbiGeneId()

      • setNcbiGeneId

        public void setNcbiGeneId​(Integer ncbiGeneId)

      • getOfficialName

        @Field(analyze=NO)
public String getOfficialName()

      • setOfficialName

        public void setOfficialName​(String officialName)

      • getOfficialSymbol

        @Field(analyze=NO)
public String getOfficialSymbol()

      • setOfficialSymbol

        public void setOfficialSymbol​(String officialSymbol)

      • getProducts

        @IndexedEmbedded
public Set<GeneProduct> getProducts()

      • setProducts

        public void setProducts​(Set<GeneProduct> products)

      • getTaxon

        @IndexedEmbedded
public Taxon getTaxon()
        Returns:
        Note that a Gene also has a chromosome, so the organism can be inferred that way as well. This direct association is a denormalization for queries that don't care about location, just species-membership.

      • setTaxon

        public void setTaxon​(Taxon taxon)