drosgenome1PATH {drosgenome1.db} | R Documentation

## Mappings between probe identifiers and KEGG pathway identifiers

### Description

KEGG (Kyoto Encyclopedia of Genes and Genomes) maintains pathway data for various organisms. drosgenome1PATH maps probe identifiers to the identifiers used by KEGG for pathways in which the genes represented by the probe identifiers are involved

### Details

Each KEGG pathway has a name and identifier. Pathway name for a given pathway identifier 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 identifiers as keys.

Mappings were based on data provided by: KEGG GENOME ( ftp://ftp.genome.jp/pub/kegg/genomes ) on 2009-Mar10 For fly, this required mapping these ids THROUGH the flybase IDs provided by NCBI.

### References

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

### Examples

            x <- drosgenome1PATH
            # Get the probe identifiers that are mapped to a KEGG pathway ID
            mapped_probes <- mappedkeys(x)
            # Convert to a list
            xx <- as.list(x[mapped_probes])
            if(length(xx) > 0) {
              # Get the PATH for the first five probes
              xx[1:5]
              # Get the first one
              xx[[1]]
            }

[Package drosgenome1.db version 2.2.11 Index]