hgu2beta7REFSEQ          package:hgu2beta7          R Documentation

_M_a_p_p_i_n_g_s _b_e_t_w_e_e_n _p_r_o_b_e _i_d_e_n_t_i_f_i_e_r_s _a_n_d _R_e_f_S_e_q _i_d_e_n_t_i_f_i_e_r_s

_D_e_s_c_r_i_p_t_i_o_n:

     The Reference Sequence (RefSeq) database contains curated
     non-redundant set of sequences for genomic DNA, RNA, and protein 
     for various organisms. hgu2beta7REFSEQ maps probe identifiers to
     all the RefSeq identifiers that are mapped by NCBI to genes
     represented by the probe identifiers

_D_e_t_a_i_l_s:

     RefSeq ids differ in format according to the type of record the
     ids are for as shown below:

     NG_XXXXX: RefSeq accessions for genomic region (nucleotide)
     records

     NM_XXXXX: RefSeq accessions for mRNA records

     NC_XXXXX: RefSeq accessions for chromosome records

     NP_XXXXX: RefSeq accessions for protein records

     XR_XXXXX: RefSeq accessions for model RNAs that are not associated
     with protein products

     XM_XXXXX: RefSeq accessions for model mRNA records

     XP_XXXXX: RefSeq accessions for model protein records

     Where XXXXX is a sequence of integers.

     NCBI <URL: http://www.ncbi.nlm.nih.gov/RefSeq/> allows users to
     query the RefSeq database using RefSeq ids.

     Mappings were based on data provided by:

     LocusLink:<URL:
     ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.gz>. Built:
     February 16, 2005

     Package built Wed Feb 16 23:32:20 2005

_R_e_f_e_r_e_n_c_e_s:

     NCBI <URL: http://www.ncbi.nlm.nih.gov> and RefSeQ  <URL:
     http://www.ncbi.nlm.nih.gov/RefSeq/>

_E_x_a_m_p_l_e_s:

         # Convert the environment to a list
         xx <- as.list(hgu2beta7REFSEQ)
         # Remove probe ids that do not map to any RefSeq
         xx <- xx[!is.na(xx)]
         if(length(xx) > 0){
         # The RefSeq for the first two elements of XX
         xx[1:2]
         # Get the first one
         xx[[1]]
     }

