Hi Ed For this particular EST sequence, you find the annotation in UniGene. http://www.ncbi.nlm.nih.gov/unigene If you have many such EST sequences, I recommend to download the UniGene file: ftp://ftp.ncbi.nih.gov/repository/UniGene/Homo_sapiens/Hs.data.gz and do some horrible parsing (with your favorite parsing language)..... For "R28020", you will get: ID Hs.369017 TITLE RAB2A, member RAS oncogene family GENE RAB2A CYTOBAND 8q12.1 GENE_ID 5862 LOCUSLINK 5862 SEQUENCE ACC=R28020.1; NID=g784155; CLONE=IMAGE:133972; END=3'; LID=271; SEQTYPE=EST Regards, Hans-Rudolf On 10/03/2013 10:34 PM, James W. MacDonald wrote: > Hi Ed, > > Hypothetically you would want to use the org.Hs.eg.db package. However, > not all GenBank assession numbers will be annotated, presumably because > they have been retired. Alternately you could use biomaRt as well. > > However, the example ID you give is not annotated by either source. > > Best, > > Jim > > > > On Wednesday, October 02, 2013 4:05:51 PM, Ed Siefker wrote: >> What package would I need to transform Genbank accession numbers into >> gene symbols or entrez gene ids? e.g.If I search "R28020" on NCBI, it >> tells >> me that "This EST is one of 1366 sequences matched to RAB2A: RAB2A, >> member RAS oncogene family. " >> >> Is there a metadata package that has this kind of information in it? I >> have a >> couple hundred such identifiers that I need to map to genes. I'd like to >> be able to run >> >> getSYMBOL("R28020", "some_annotation_package") >> >> and get a useful result. Any ideas? >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor > > -- > James W. MacDonald, M.S. > Biostatistician > University of Washington > Environmental and Occupational Health Sciences > 4225 Roosevelt Way NE, # 100 > Seattle WA 98105-6099 > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor