Hi Carsten, You can get information on the GO terms and Kegg Pathway entries associated with a UCSC Gene from the Table Browser. Here is a previously-answered question describing how to get GO terms:
https://lists.soe.ucsc.edu/pipermail/genome/2005-January/006522.html For Kegg, you can go to the Table Browser and select the knownGene table, and get "selected fields from primary and related tables". Choose the "keggPathway" table and hit the "allow selection from checked tables" button. If you also want to get the descriptions associated with the pathway identifier, at this point you can scroll down again and select the "keggMapDesc" table as well. Another option is to use the Gene Sorter (http://genome.ucsc.edu/cgi-bin/hgNear). If you enter a gene of interest to view, you will see that gene listed at the beginning of your list, followed by related genes. Hit the "configure" button to turn on columns displaying Kegg and Gene Ontology information. Note that you can sort genes by "GO Similarity". I hope this helps get you started. If you have further questions, please contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 10/6/11 8:17 AM, Carsten Raabe wrote: > Dear All, > > I am pretty sure that there is a easy way just that I am not aware of > it; I do work with the human UCSC known gene collection. How would I get > to know about associated gene Onthology terms or potential connections > to the kegg pathway entries in the most simplest way. > > Cheers, > > and as usual thanks in advance, > > Carsten > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
