GOSYNONYM {GO}R Documentation

Annotation of GO Synonyms to GO Terms

Description

This data set gives mappings between GO synonyms and their respective terms.

Details

Each GO synonym is mapped to a GOTerms object that has 6 slots:

GOID
GO Identifier
Term
The term for that GO id
Synonym
Synonymous terms
Secondary
Secondary terms that have been merged into this term
Definition
Further definition of the GO term
Ontology
One of MF - molecular function, BP - biological process, or CC - cellular component

Synonyms of obsolete GO terms are not included.

Mappings were based on data provided by:

Gene Ontology:http://gopher5/compbio/annotationSourceData/archive.godatabase.org/latest/. Built: 08-Feb-2007

Package built: Fri Mar 2 13:37:12 2007

References

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene

Examples

    require("GO") || stop("GO unavailable")
    require("annotate") || stop("annotate unavailable")
    # Convert the environment object to a list
    xx <- as.list(GOSYNONYM)
    if(length(xx) > 0){
        # Get the TERMS for the first elent of xx
        GOID(xx[[1]])
        Term(xx[[1]])
        Synonym(xx[[1]])
        Secondary(xx[[1]])
        Definition(xx[[1]])
        Ontology(xx[[1]])
    }

[Package GO version 2.2.0 Index]