Hello, All data is aligned to the genomic. Annotation tracks can linked by comparing genomic footprints. The Table browser can be used to do the comparison or ftp the flat files and compare using your own tools.
General method for single gene using the Table browser for your example gene: 1) Navigate S.cerevisiae genome and the track Ensembl Genes or SGD Genes 2) Paste in the Ensembl ID 3) Save results as a custom track 4) Start over using the Spliced ESTs track 5) Create an intersection against the custom track containing your gene http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html#SimpleIntersection 6) Output results will contain all ESTs with overlap as specified in the intersection form. Thanks, Jennifer Jackson UCSC Genome Bioinformatics Group V. Rubins wrote: > Hello all, > > I am working on a project in which I would like to leverage S. > cerevisiae spliced ESTs. However, I cannot quite determine which table > lists the ESTs that align with an arbitrary gene. I've looked in > all_ests, but that does not seem to include the gene to which an EST > aligns. Perhaps I am misreading the table? Ultimately, I must be able > to take a gene name like YAL001C to the ESTs that align with it. How > can I effectively do that? > > Thanks > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
