\HeaderA{GOENTREZID}{Gene Ontology (GO) to Entrez Gene Mapping}{GOENTREZID}
\aliasA{GOLOCUSID}{GOENTREZID}{GOLOCUSID}
\keyword{datasets}{GOENTREZID}
\begin{Description}\relax
This data set gives mappings between GO identifiers and Entrez Gene
identifiers as reported by NCBI. The format is an R environment mapping
GO identifiers to a vector of Entrez Gene identifiers that are associated with it. In
addition to the Entrez Gene identifier. the evidence code (the reason for the
association) is also given.
\end{Description}
\begin{Details}\relax
Each GO identifier is mapped to a named vector of Entrez Gene identifiers. The name
associated with each Entrez Gene identifier corresponds to the evidence code
for that GO identifier. The evidence code indicates what kind of evidence
supports the association between the GO and Entrez Gene identifiers. Evidence
codes currently in use include:

IMP - inferred from mutant phenotype  

IGI - inferred from genetic interaction

IPI - inferred from physical interaction  

ISS - inferred from sequence similarity  

IDA - inferred from direct assay  

IEP - inferred from expression pattern  

IEA - inferred from electronic annotation  

TAS - traceable author statement  

NAS - non-traceable author statement  

ND - no biological data available  

IC - inferred by curator

NA is assigned to GO identifiers that can not be mapped to any Entrez Gene identifier at
this time.  

Mappings were based on data provided by:

Gene Ontology:\url{http://gopher5/compbio/annotationSourceData/archive.godatabase.org/latest/}. Built: 08-Aug-2006

Entrez Gene:\url{http://gopher5/compbio/annotationSourceData/ftp.ncbi.nlm.nih.gov/gene/DATA/}. Built: Source data downloaded from Entrez Gene on Tue Sep  5 18:42:30 2006

Package built: Tue Sep  5 18:42:30 2006
\end{Details}
\begin{References}\relax
\url{http://www.geneontology.org/} and
\url{http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene}
\end{References}
\begin{Examples}
\begin{ExampleCode}
    require("GO") || stop("GO unavailable")
    # Convert the environment object to a list
    xx <- as.list(GOENTREZID)
    # Remove GO identifiers that are not mapped to any Entrez Gene id
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
        # Get the Entrez Gene identifiers for the first two elents of xx
        llids  <- xx[1:2]
        # Get the evidence code llids
        evds <- sapply(llids, names)
    }
\end{ExampleCode}
\end{Examples}