GOBPCHILDREN {GO}R Documentation

Annotation of GO identifiers by the GO identifiers of their direct chileren

Description

GOBPCHILDREN mappes GO ids to the GO ids of their direct children under biological process (BP). Direct children of a given GO id are those GO ids correponding to all the children nodes that have direct link to the node for the GO id of concern based on the directed acyclic graph defined by Gene Ontology Consortium. GO terms for children nodes are more specific than that for the parents

Details

This is an environment object with key and value pairs. GO ids are keys and the corresponding children GO ids are values. Values are vectors of length 1 or greater depending on whether the GO id of concern has only one or more children. GO ids that do not have any child node are assigned NA as the values.

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 Consortium built: 2004-02-01.http://www.godatabase.org/dev/database/archive/2004-02-01/go_200402-termdb.xml.gz

Package built: Wed Mar 3 16:27:29 2004

References

http://www.geneontology.org/ and http://www.ncbi.nlm.nih.gov/LocusLink

Examples

  require("GO", character.only = TRUE) || stop("GO 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 first element
    xx[[1]]
    # Get more than one elements
    xx[1:3]
  }

[Package GO version 1.5.1 Index]