IyerAnnotated            package:Iyer517            R Documentation

_P_a_r_t_l_y _a_n_n_o_t_a_t_e_d _v_e_r_s_i_o_n _o_f _I_y_e_r_5_1_7 _d_a_t_a

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

     GenBank ids, LocusLink ids (where available) and GO tags (where
     available) for the 517 cDNAs in the dataset.

_U_s_a_g_e:

     data(IyerAnnotated); data(Iyer517GO)

_F_o_r_m_a_t:

     Iyer517GO: An environment with keys given by the 'GB' identifiers
     of probes and values given by vectors of GO tags (named by
     evidence codes) obtained via locuslink mapping

     IyerAnnotated: A data frame with 517 observations on the following
     9 variables.

     _I_c_l_u_s_t a factor with levels 'N' 'A' 'B' ... - the cluster groups
          A-J of the Iyer paper, with N for those rows that were not
          clustered

     _G_B a factor with levels 'AA001025' 'AA001722' ... accession
          numbers (often genbank) for probes

     _s_e_q_n_o a numeric vector indicating the order of the cDNA in the
          Iyer report on clustering.  (Elements 2:101 formed cluster A,
          etc.) 

     _l_o_c_u_s_i_d a numeric vector of locuslink ids, formed using AnnBuilder

     _G_O_1 a character vector of GO tags (there were up to five based on
          the LL:GO mapping available March 2003 - these should be
          ignored in favor of the new Iyer517GO environment

     _G_O_2 a character vector

     _G_O_3 a character vector

     _G_O_4 a character vector

     _G_O_5 a character vector

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

     Annotating this dataset is a good exercise for AnnBuilder. Many of
     the probes seem to have no annotation.

_S_o_u_r_c_e:

     <URL: http://genome-www.stanford.edu/serum/data.html>

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

     Iyer et al, Science v283: 83-87 (1999)

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

     data(IyerAnnotated)
     table(is.na(IyerAnnotated$GO1))
     data(Iyer517GO)
     get(ls(env=Iyer517GO)[1],env=Iyer517GO)

