GOTERM                  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 _G_O _T_e_r_m_s

_D_e_s_c_r_i_p_t_i_o_n:

     This data set gives mappings between GO ids and their respective
     terms.

_D_e_t_a_i_l_s:

     Each GO id is mapped to a 'GOTerms' object that has 6 slots:

_G_O_I_D GO Identifier

_T_e_r_m The term for that GO id

_S_y_n_o_n_y_m Synonymous terms

_S_e_c_o_n_d_a_r_y Secondary terms that have been merged into this term

_D_e_f_i_n_i_t_i_o_n Further definition of the GO term

_O_n_t_o_l_o_g_y One of MF - molecular function, BP - biological process, or CC
     - cellular component

     All the obsolete GO terms are under the nodes "obsolete molecular
     function" (GO:0008369), "obsolete cellular component" (GO id
     GO:0008370), and "obsolete biological process" (GO:0008371). Each
     of these GO ids has a group of GO ids as their direct children
     with GO terms that were defined by GO but are deprecated in the
     current build. These deprecated GO terms were appended by
     "(obsolete)" when the data package was built. 

     Mappings were based on data provided by:

     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.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene>

_E_x_a_m_p_l_e_s:

         require("GO") || stop("GO unavailable")
         require("annotate") || stop("annotate unavailable")
         # Convert the environment object to a list
         xx <- as.list(GOTERM)
         if(length(xx) > 0){
             # Get the TERMS for the first elent of xx
             GOID(xx[[1]])
             Term(xx[[1]])
             Synonym(xx[[1]])
             Secondary(xx[[1]])
             Definition(xx[[1]])
             Category(xx[[1]])
         }

