GOMFCHILDREN               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 _M_o_l_e_c_u_l_a_r _F_u_n_c_t_i_o_n _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
     (MF) terms and their direct children MF terms, based on the
     directed acyclic graph (DAG) defined by the Gene Ontology
     Consortium. The format is an R environment mapping the GO MF 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 MF term is mapped to a vector of children GO MF terms.

     Molecular function is defined as the tasks performed by individual
     gene products; examples are transcription factor and DNA helicase
     as defined by Gene Ontology Consortium.  

     Mappings were based on data provided by:

     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(GOMFCHILDREN)
         # Remove GO ids that do not have any children
         xx <- xx[!is.na(xx)]
         if(length(xx) > 0){
             # Get the children 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]]])
         }

