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/www.godatabase.org/dev
     /database/archive/latest/>. Built: 200504

     Package built: Tue May 17 09:56:06 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]]])
       }

