GOBPCHILDREN {GO} | R Documentation |
This data set describes associations between GO molecular function (BP) terms and their direct children BP terms, based on the directed acyclic graph (DAG) defined by the Gene Ontology Consortium. The format is an R environment mapping the GO BP terms to all direct children terms, where a direct child term is a more specific GO term that is immediately preceded by the given GO term in the DAG.
Each GO BP term is mapped to a vector of children GO BP terms.
Biological process is defined as the broad biological goals, such as mitosis or purine metabolism, that are accomplished by ordered assemblies of molecular functions as defined by Gene Ontology Consortium.
Mappings were based on data provided by:
Gene Ontology:http://gopher5/compbio/annotationSourceData/archive.godatabase.org/latest/. Built: 08-Aug-2006
Package built: Tue Sep 5 18:42:30 2006
http://www.geneontology.org/ and http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene
require("GO", character.only = TRUE) || stop("GO unavailable") require("annotate", character.only = TRUE) || stop("annotate unavailable") # Convert the environment object to a list xx <- as.list(GOBPCHILDREN) # Remove GO IDs that do not have any children xx <- xx[!is.na(xx)] if(length(xx) > 0){ # Get the parent GO IDs for the first elents of xx goids <- xx[[1]] # Find out the GO terms for the first parent goid GOID(GOTERM[[goids[1]]]) Term(GOTERM[[goids[1]]]) Synonym(GOTERM[[goids[1]]]) Secondary(GOTERM[[goids[1]]]) Definition(GOTERM[[goids[1]]]) Ontology(GOTERM[[goids[1]]]) }