KEGGEXTID2PATHID {KEGG}R Documentation

An annotation data file that maps Entrez Gene or Open Reading Frame identifiers KEGG pathway identifiers

Description

KEGGEXTID2PATHID maps Entrez Gene (for human, mouse, and rat) and Open Reading Frame (for yeast) identifiers to KEGG pathway identifiers.

Details

This is an environment object containing key and value pairs. Keys are Entrez Gene identifiers for human, mouse, and rat and Open Reading Frame (ORF) identifiers for yeast and values are the corresponding KEGG pathway identifiers. Values are vectors of length 1 or greater depending on whether a given external identifier can be mapped to only one or more KEGG pathway identifiers. NAs are assigned to Entrez Gene or ORF identifiers that can not be mapped to any pathway identifier.

KEGG pathway identifiers are the identifiers used by KEGG for various pathways.

Mappings between KEGG pathway identifiers and pathway names can be obtained through another environment named PATHID2NAME.

Mappings were based on data provided by:

KEGG:http://gopher6/compbio/annotationSourceData/kegg/pathways/map_title.tab. Built: Release 41.1, February 1, 2007

Package built: Fri Aug 24 09:54:27 2007

References

ftp://ftp.genome.ad.jp/pub/kegg/pathways

Examples

        require("annotate") || stop("annotate unavailable")
        xx <- as.list(KEGGEXTID2PATHID)
        if(length(xx) > 0){
                # Get the value of the first key
                xx[[1]]
                # Get the values for multiget for a few keys
                if(length(xx) >= 3){
                        xx[1:3]
                }
        }

[Package KEGG version 2.2.0 Index]