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]])
         }

