get.genes.by.pathway {KEGGSOAP} | R Documentation |
Given a KEGG pathway identifier, the functions query the KEGG PATHWAY database for all the genes/enzymes/compounds/reactions that that are involved in the interactions in the specified pathway.
get.genes.by.pathway(pathway.id) get.enzymes.by.pathway(pathway.id) get.compounds.by.pathway(pathway.id) get.reactions.by.pathway(pathway.id)
pathway.id |
pathway.id a character string for a KEGG
pathway id. KEGG pathway ids consist of the string path followed by
a colon, a three-letter code for the organism of concern, and then
a number (e. g. "path:eco00020"). The three-letter organism code
consists of the first letter of the genus name and the first two
letters of the species name of the scientific name of the organism
of concern |
KEGG pathway identifiers for a given organism can be obtained using
function list.pathways
The functions return a vector of KEGG gene/enzyme/compound/reation ids found in the pathway
Jianhua Zhang
http://www.genome.jp/kegg/soap/doc/keggapi_manual.html
genes <- get.genes.by.pathway("path:eco00020") enzymes <- get.enzymes.by.pathway("path:eco00020") compounds <- get.compounds.by.pathway("path:eco00020") reactions <- get.reactions.by.pathway("path:eco00020")