cMAPKEGGINTERACTION           package:cMAP           R Documentation

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_D_e_s_c_r_i_p_t_i_o_n:

     cMAPKEGGINTERACTION maps cMAP (NCICB Pathway Interaction Database)
     molecule ids to data about the interactions of the molecule
     represented by the ids and other molecules

_D_e_t_a_i_l_s:

     This is an environment object containing key and value pairs. Keys
     are molecule ids and values are lists of vectors and sublists.
     Each molecule id is mapped to a list that has a source, process,
     reversible, condition, and component element.

     The source element is a character string indicating whether the
     interactions between molecules are from a BioCarta or KEGG
     pathway. 

     The process is a character string describing the process the key
     molecule is involved. Potential values include "reaction",
     "modification", "transcription", "translocation", "macroprocess"
     or a more specific subtype of macroprocess including any term from
     the GO Biological Process vocabulary. 

     The reversible element is a boolean indicating whether the
     interaction is reversible. 

     The condition element is a character string indicating the
     biological process the interactions take place. Potential values
     include any term from the GO Biological Process vocabulary.

     The component element contains sublists of vectors. Each key
     molecule id has a sequence of component represented by elements of
     the sublist. Each sublist has an id (molecule id of the
     interacting molecule), edge (indicating the way two molecule
     interact. Potential values include "input", "agent", "inhibitor",
     and "output"), role (the function of the key molecule. Potential
     values include any term from the GO Molecular Function
     vocabulary), location (a GO Cellular Component vocabulary
     indicating the location of the interaction), and activity (an
     abstract term that can be "inactive", "active", "active1",
     "active2") elements.   

     Mappings were based on data provided by:

     cMAP: <URL: http://cmap.nci.nih.gov/PW/Download>. Build:
     Unavailable. Downloaded:Thu May 12 10:20:57 2005

     Package built: Thu May 12 10:20:57 2005

_R_e_f_e_r_e_n_c_e_s:

     cMAP <URL: http://cmap.nci.nih.gov/PW>

_E_x_a_m_p_l_e_s:

         require(cMAP) || stop(paste(cMAP, "unavailable"))
         xx <- as.list(cMAPKEGGINTERACTION)
         if(length(xx) > 0){
             # Get the value of the first key
             xx[[1]]
             # Get the values for multiget for a few keys
             if(length(xx) >= 3){
                 xx[1:3]
             }
         }

