GOCCANCESTOR               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 _A_n_c_e_s_t_o_r_s

_D_e_s_c_r_i_p_t_i_o_n:

     This data set describes associations between GO molecular function
     (CC) terms and their ancestor 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 ancestor
     terms, where an ancestor term is a more general GO term that
     precedes the given GO term in the DAG (in other words, the
     parents, and all their parents, etc.).

_D_e_t_a_i_l_s:

     Each GO CC term is mapped to a vector of ancestor GO C 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/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.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")
       # Convert the environment object to a list
       xx <- as.list(GOCCANCESTOR)
       # Remove GO ids that do not have any ancestor
       xx <- xx[!is.na(xx)]
       if(length(xx) > 0){
         # Get the ancestor GO ids for the first two elents of xx
         goids <- xx[1:2]
       }

