hgu95av2ACCNUM           package:hgu95av2           R Documentation

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

     hgu95av2ACCNUM contains mappings between probe ids to identifiers
     provided by a manufacturer or user at the time when hgu95av2 was
     built. The manufacture or user provided ids were used to link
     probe ids to annotation data available from various public data
     sources to obtain the other annotations contained in hgu95av2.

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

     In order to build an annotate data package, a data file with a
     column for probe ids and another for the matching
     manufacturer/user provided ids is required. This data file is used
     as the base for mapping probe ids to LocusLink identifiers (unique
     ids used by NCBI <URL: http://www.ncbi.nlm.nih.gov/LocusLink/> to
     represent genetic loci and link to curated sequence and
     descriptive information) through the manufacturer/user provided
     ids. The mapped LocusLink ids then serve as the point of linkage
     to other annotation data provided by various public data sources.

     hgu95av2ACCNUM contains the mappings of the base file and the
     derived mappings between probe ids to other annotation data are
     contained by other annotation data files in hgu95av2. 

     Valid manufacturer/user provided ids currently include GenBank
     accession numbers (identifiers obtained after submitting a
     sequence to GenBank, EMBL or DDBJ), UniGene ids (identifiers used
     by NCBI to represent clusters of sequences of a unique gene),
     RefSeq ids (identifiers for non-redundant sequences curated by
     NCBI), or IMAGE clone ids (identifies given to clones from shared
     arrayed cDNA libraries by The Integrated Molecular Analysis of
     Gene Expression (IMAGE) Consortium).

     For all the Affymetrix chips, the manufacturer/user provided ids
     are GenBank accession numbers. 

     Package built: Wed Jan 12 16:57:23 2005

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

             # Convert to a list
             xx <- as.list(hgu95av2ACCNUM)
             # Remove probe ids that do not map to any ACCNUM
             xx <- xx[!is.na(xx)]
             if(length(xx) > 0){
             # Get the ACCNUM for the first five probes
             xx[1:5]
             # Get the first one
             xx[[1]]
     }

