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/archive.godatabase.org
     /latest/>. Built: 08-Aug-2006

     Package built: Tue Sep  5 18:42:30 2006

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