[Gramene] changes in gene ontology

[Liya Ren]

Hi Joy,

Sorry for the late response. I was on vacation last week. We have a  
new Gramene release (v. 30)  last week. So I guess you saw the  
difference between v 29 and v 30. At the latest release we have the GO  
annotation with oryza sativa indica group (BGI )  besides the GO  
annotation with Oryza sativa (TIGR/MSU 6). If you are working with MSU  
locus ID, you should use the oryza sativa. There are less number of GO  
annotation at this release is because we no longer include the GO  
annotation assigned by MSU which are projected via homology with  
arabidopsis genes.

Regards,

Liya



On Oct 8, 2009, at 4:18 AM, Barraquias, Joy (IRRI) wrote:

> Dear Gramene curators,
>
> I was downloading your GO yesterday (7 Oct 2009) specific for Oryza  
> sativa.
> The GO just changed today now giving two choices: Oryza sativa and  
> Oryza sativa indica group.
> Both give a lot lesser number of GO terms. The indica group have an  
> object ID from BGI but
> I have MSU locus ID so I can't directly use it. Whereas in the Oryza  
> sativa option, the number
> of GO terms are a lot less than yesterday. Does this mean that the  
> GO I've downloaded yesterday
> are now obsolete? I am aware that you have had update for October 2009
>
> Thank you very much.
>
> -Joy Barraquias
> MS Thesis Scholar, PBGB
> International Rice Research Institute
>
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> Gramene at brie4.cshl.edu
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