GOCCCHILDREN               package:GO               R Documentation

_A_n_n_o_t_a_t_i_o_n _o_f _G_O _I_d_e_n_t_i_f_i_e_r_s _t_o _t_h_e_i_r _C_e_l_l_u_l_a_r _C_o_m_p_o_n_e_n_t _C_h_i_l_d_r_e_n

_D_e_s_c_r_i_p_t_i_o_n:

     This data set describes associations between GO molecular function
     (CC) terms and their direct children CC terms, based on the
     directed acyclic graph (DAG) defined by the Gene Ontology
     Consortium. The format is an R environment mapping the GO CC 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.

_D_e_t_a_i_l_s:

     Each GO CC term is mapped to a vector of children GO CC terms.

     Cellular component is defined as the subcellular structures,
     locations, and macromolecular complexes; examples include nucleus,
     telomere, and origin recognition complex as defined by Gene
     Ontology Consortium. 

     Mappings were based on data provided:

     Gene Ontology:<URL:
     http://gopher5/compbio/annotationSourceData/archive.godatabase.org
     /latest/>. Built: 200509

     Package built: Fri Sep 30 02:51:32 2005

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www.geneontology.org/> and <URL:
     http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene>

_E_x_a_m_p_l_e_s:

       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(GOCCCHILDREN)
       # Remove GO ids that do not have any children
       xx <- xx[!is.na(xx)]
       if(length(xx) > 0){
         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]]])
         Category(GOTERM[[goids[1]]])
       }

