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]]
     }

