rae230aPATH {rae230a}R Documentation

Mappings between probe identifiers and KEGG pathway identifiers


KEGG (Kyoto Encyclopedia of Genes and Genomes) maintains pathway data for various organisms. rae230aPATH maps probe identifiers to the identifiers used by KEGG for pathways in which the genes represented by the probe identifiers are involved


Each KEGG pathway has a name and id. Pathway name for a given pathway id can be obtained using the KEGG data package that can either be built using AnnBuilder or downloaded from Bioconductor http://www.bioconductor.org.

Graphic presentations of pathways are searchable at url{http://www.genome.ad.jp/kegg/pathway.html} by using pathway ids as keys.

Mappings were based on data provided by:

KEGG:ftp://ftp.genome.ad.jp/pub/kegg/pathways. Built: Release 31.0 (July 2004)

LocusLink:ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.gz. Built: September 15, 2004

Package built Thu Sep 16 09:31:44 2004




    # Convert the environment to a list
    xx <- as.list(rae230aPATH)
    # Remove probe ids that do not map to any pathway id
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
        # The pathway ids for the first two elements of XX
        # Get the first one

[Package rae230a version 1.6.5 Index]