hgu95av2PATH2PROBE {hgu95av2}R Documentation

Map between Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway identifiers and Manufacturer Identifiers

Description

hgu95av2PATH2PROBE is an R environment that provides mappings between KEGG ids and manufacturer ids.

Details

Each KEGG id is mapped to a named vector of manufacturer ids. The name represents the KEGG id and the vector contains all manufacturer ids that are found in that particular pathway. An NA is reported for any KEGG id that cannot be mapped to any manufacturer ids.

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 http://www.genome.ad.jp/kegg/pathway.html using pathway ids as keys.

Mappings were based on data provided by:

KEGG:http://gopher5/compbio/annotationSourceData/kegg/pathways. Built: Release 36.0, October 1, 2005

Entrez Gene:http://gopher5/compbio/annotationSourceData/ftp.ncbi.nlm.nih.gov/gene/DATA/. Built: Source data downloaded from Entrez Gene on Tue Oct 4 21:15:59 2005

Package built Tue Oct 4 21:31:35 2005

References

http://www.genome.ad.jp/kegg/

Examples

    # Convert the environment to a list
    xx <- as.list(hgu95av2PATH2PROBE)
    # Remove pathway ids that do not map to any probe id
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
        # The probe ids for the first two elements of XX
        xx[1:2]
        # Get the first one
        xx[[1]]
    } 

[Package hgu95av2 version 1.10.0 Index]