[Genome] Gene ontology and the genome browser

fungazid fungazid fungazid at yahoo.com
Fri Dec 15 08:04:38 PST 2006


Dear all,
   
  Hello to you, 
   
  I downloaded knownGene mysql-tables of mm8 and hg18, and I want to attach each gene name (‘name’ column) to its gene ontology annotations (Go). I would like to know it there is any simple way to achieve this task either in the UCSC site or in other sites. If there is a ready-made table somewhere, it is also a good idea. If you think it is better to use othe gene table than knownGene, I can listen.
   
  The table should be something like 
   
  -----------------------------------------------------------------------------------
  fields:
  Identifier ,Symbol ,Gene name,Category of term , GO ID, GO Term, Source Evidence, PubMed
   
   example - content of a record:
   
  NM_001005484          
  OR4F5            
  Olfactory receptor, family 4, subfamily F, member 5      
  molecular_function            
  GO:0004872    
  receptor activity                        
  IEA      
  -
   
  ------------------------------------------------------------------
   
   
  I tried genetools software (http://www.genetools.microarray.ntnu.no/egon/index.php), which is designed to do exactly that, but I believe I need to verify what I got.
   
   
  Thanks
  Avi
     
   
   


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