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looking for an expression analysis tool
Kara Dolinski
kara at genomics.princeton.edu
Tue Jun 13 08:13:04 PDT 2006
Hello,
We have an implementation of the GO Term Finder at Princeton that
should do the trick:
http://go.princeton.edu/cgi-bin/GOTermFinder/GOTermFinder
You can upload your own annotation file in the Advanced Options section.
Cheers,
Kara
On Jun 13, 2006, at 10:59 AM, Jane Lomax wrote:
> Hi Pascale - that's the sort of thing I'm after, but it looks like
> GOAT takes the association files from the GO website, and doesn't a
> user to
> upload their own ga file...
>
> Jane
>
> On Tue, 13 Jun 2006, Pascale Gaudet wrote:
>
>> Hi Jane,
>> I think that's what the GOAT tool from Qikai Xu and Gad Shaulsky does
>> http://dictygenome.bcm.tmc.edu/Downloads/GOAT/
>> "GOAT is a component of the microarray analysis tool package used
>> in our lab to analyze Dictyostelium
>> discoideum expression data. It has been extended so that it can be
>> used to analyze GO enrichment for
>> gene lists from any organism with genome-scale annotation data.
>> GOAT is an R package with a Tk
>> graphical user interface (GUI), so it can be integrated into other
>> R based microarray data analysis
>> packages such as BioConductor. "
>> Pascale
>> At 03:24 PM 6/13/2006 +0100, Jane Lomax wrote:
>> Hi - does anyone devevelop, or know of, a gene expression
>> analysis tool that uses GO, and
>> allows a user to upload their own gene association file,
>> preferably in standard GO format?
>>
>> This is useful for species with no GO annotation in the GO
>> database.
>>
>> many thanks,
>>
>> Jane
>>
>> --
>> Dr Jane Lomax
>> GO Editorial Office
>> EMBL-EBI
>> Wellcome Trust Genome Campus
>> Hinxton
>> Cambridgeshire, UK
>> CB10 1SD
>>
>> p: +44 1223 492516
>> f: +44 1223 494468
>>
>> --
>> This message is from the GOFriends moderated mailing list.
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>
> --
> Dr Jane Lomax
> GO Editorial Office
> EMBL-EBI
> Wellcome Trust Genome Campus
> Hinxton
> Cambridgeshire, UK
> CB10 1SD
>
> p: +44 1223 492516
> f: +44 1223 494468
--
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