Hello, The track UCSC Genes can be linked into both UniProt and GO information. Use the Table browser to merge and output or ftp the files from the Downloads area and merge using your own tools.
Table browser help (specifically, look at "select output from primary and related tables"): http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#TableBrowser Downloads server help: http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#Download The files/tables are linked like this (bring up the UCSC Genes track and use the "describe table schema" button), primary table = knownGene: UniProt: hg18.knownGene.name -> hg18.kgXref.kgID hg18.kgXref.spDisplayID -> uniProt.displayId.val uniProt.displayId.acc -> uniProt.description.acc uniProt.description.val GO: hg18.knownGene.name -> hg18.kgXref.kgID hg18.kgXref.spID -> go.goaPart.dbObjectSymbol go.goaPart.goId -> go.term.acc go.term.id -> go.term_definition.term_id go.term_definition.term_definition Using these tables and others that are associated, you can choose the best identifier for the protein (RefSeq name, gene symbol, genomic alignment footprint, etc.). Once downloaded, you will also need to filter the values/terms for those that describe cell localization using your own methods. Thanks, Jennifer --------------------------------- Jennifer Jackson UCSC Genome Bioinformatics Group http://genome.ucsc.edu/ On 2/25/10 8:08 PM, Yuan Jian wrote: > Hi UCSC genome, > > I want to know the physical location in cell for human proteins. > some proteins are in nucleus, but some in cytoplasm. > do you have a table that I can download to describe this information below? > > protein1 nucleus > protein2 > > > > __________________________________________________________________________________ > Yahoo!7: Catch-up on your favourite Channel 7 TV shows easily, legally, and > for free at PLUS7. www.tv.yahoo.com.au/plus7 > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
