[InterMine Dev] Querying GO terms

Lewis, Brian Andrew brilewis at iupui.edu
Thu Sep 8 16:44:21 BST 2011


Yes, apologies for the misspell - homo sapiens (taxon 9606)

~ Brian

-----Original Message-----
From: Gos Micklem [mailto:gos at gen.cam.ac.uk] 
Sent: Thursday, September 08, 2011 11:36 AM
To: Lewis, Brian Andrew
Cc: Gos Micklem
Subject: Re: [InterMine Dev] Querying GO terms

On Thu, Sep 08, 2011 at 02:32:54PM +0000, Lewis, Brian Andrew wrote:
> Homo sapien

sapiens?

Gos

> 
> Date: Thu, 08 Sep 2011 14:58:34 +0100
> 
> From: Julie Sullivan <julie at flymine.org<mailto:julie at flymine.org>>
> 
> To: dev at intermine.org<mailto:dev at intermine.org>
> 
> Subject: Re: [InterMine Dev] Querying GO terms
> 
> Message-ID: 
> <4E68CA0A.20703 at flymine.org<mailto:4E68CA0A.20703 at flymine.org>>
> 
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
> 
> 
> 
> Which organisms are you loading?
> 
> 
> 
> On 08/09/11 14:45, Lewis, Brian Andrew wrote:
> 
> > In our instance of InterMine I've loaded several public data sources
> 
> > including ensembl, HGNC, BioGrid, UniProt, and GO.  When I run the
> 
> > project_build script,
> 
> 
> 
> I'm not getting any error messages at all and all the data sources 
> look like they have been loaded.  However, when I go to the web 
> application and try to query any
> 
> 
> 
> GO terms related to specific genes I get no results back.  I checked 
> out the database and there is a genegoannotation table but there are 
> no rows, which is probably
> 
> 
> 
>   the reason why the query is coming back negative.  Do I need to create an addition file for these objects to be associated?
> 
> >
> 
> > Thanks,
> 
> > Brian
> 
> >
> 
> >
> 
> >
> 
> >
> 
> > _______________________________________________
> 
> > dev mailing list
> 
> > dev at intermine.org<mailto:dev at intermine.org>
> 
> > http://mail.intermine.org/cgi-bin/mailman/listinfo/dev
> 

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-- 
Gos Micklem PhD              g.micklem at gen.cam.ac.uk
Department of Genetics/ Department of Applied Maths University of Cambridge Tel : +44 (0) 1223 760 256 Fax : +44 (0) 1223 333 992
www.ccbi.cam.ac.uk   www.modencode.org   
www.flymine.org      www.metabolicmine.org
http://www.sysbiol.cam.ac.uk/index.php?page=dr-gos-micklem



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