An annotation data object that maps KEGG pathway identifiers to Entrez Gene or Open Reading Frame identifiers.

Description

KEGGPATHID2EXTID maps KEGG pathway identifiers to Entrez Gene (for human, mouse, and rat) or Open Reading Frame (for yeast) identifiers

Details

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

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 annotation data object named KEGGPATHID2NAME.

Mappings were based on data provided by: KEGG GENOME ftp://ftp.genome.jp/pub/kegg/genomes With a date stamp from the source of: 2011-Mar15

References

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

See Also

• AnnotationDb-class for use of the select() interface.

Examples

## select() interface:
## Objects in this package can be accessed using the select() interface
## from the AnnotationDbi package. See ?select for details.

## Bimap interface:
xx <- as.list(KEGGPATHID2EXTID)
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]
    }
}