[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
-
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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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