zebrafishPATH2PROBE {zebrafish} | R Documentation

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

### Description

zebrafishPATH2PROBE is an R environment that provides mappings between KEGG identifiers and manufacturer identifiers.

### Details

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

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

Mappings were based on data provided by:

KEGG:ftp://ftp.genome.ad.jp/pub/kegg/tarfiles/pathway.tar.gz. Built: Release 38.1, June 1, 2006

Entrez Gene:ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/. Built: Source data downloaded from Entrez Gene on Mon Sep 25 17:52:03 2006

Package built Mon Sep 25 17:56:47 2006

### References

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

### Examples

        # Convert the environment to a list
        xx <- as.list(zebrafishPATH2PROBE)
        # Remove pathway identifiers that do not map to any probe id
        xx <- xx[!is.na(xx)]
        if(length(xx) > 0){
            # The probe identifiers for the first two elements of XX
            xx[1:2]
            # Get the first one
            xx[[1]]
        }

[Package zebrafish version 1.14.0 Index]