\HeaderA{GOLOCUSID}{Annotation of GO identifiers by the corresponding LocusLink
identifiers}{GOLOCUSID}
\keyword{datasets}{GOLOCUSID}
\begin{Description}\relax
This is an R environment (hash table) mapping GO ids to the LocusLink
ids corresponding to the GO id.
\end{Description}
\begin{Details}\relax
GO ids are Keys and the corresponding LocusLink ids are values. Values
are named vectors of length 1 or greater depending on whether a given
GO id can be mapped to only one or more LocusLink ids. Names for
values are the evidence codes for the GO id (if evidence code was
provided by source data). The evidence codes that are 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 ids that can not be mapped to any LocusLink id at
this time.  

Only specific mappings (not derived from the directed acyclic graph of 
Gene Ontology) between GO and LocusLink ids were included. Non-specific 
mappings (derived from the directed acyclic graph of Gene Ontology. 
e. g. GO ids are mapped to LocusLink ids that are mapped to their 
children) are provided by a separate environment named GOALLLL. 

Mappings were based on data provided by:

Gene Ontology:\url{http://www.godatabase.org/dev/database/archive/2004-09-01/go_200409-termdb.xml.gz}. Built: 2004-09-01

LocusLink:\url{ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.gz}. Built: January 10, 2005

Package built: Mon Jan 10 19:19:56 2005
\end{Details}
\begin{References}\relax
\url{http://www.geneontology.org/} and
\url{http://www.ncbi.nlm.nih.gov/LocusLink}
\end{References}
\begin{Examples}
\begin{ExampleCode}
    require("GO") || stop("GO unavailable")
    # Convert the environment object to a list
    xx <- as.list(GOLOCUSID)
    # Remove GO ids that are not mapped to any LocusLink id
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
        # Get the LocusLink ids for the first two elents of xx
        llids  <- xx[1:2]
        # Get the evidence code llids
        evds <- sapply(llids, names)
    }
\end{ExampleCode}
\end{Examples}

