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[go-friends] GO enrichment analysis - IDs not in database

Paola Roncaglia paola at ebi.ac.uk
Thu Jun 28 08:48:06 PDT 2012


Hello,

We have a GO user (cc'd on this email) who would like to perform GO term 
enrichment analysis on a newly sequenced species, from in-house 
microarray results. The genomic data is public (released by DOE-JGI), 
but not available from a public database yet, therefore the gene product 
IDs are not recognized by e.g. AmiGO's enrichment tool. The user has a 
list of IDs of differentially expressed transcript, and a table provided 
by the sequencing lab that contains all transcript IDs and 
automatically-generated GO term assignments. Could anyone please 
recommend a tool?

The latest email on this subject (containing most of the pertaining 
GO-help correspondence, bottom to top) is here:
https://mailman.stanford.edu/pipermail/go-helpdesk/2012-June/005212.html

Many thanks,
Paola Roncaglia

-- 
Dr Paola Roncaglia
GO Editorial Office
EMBL-EBI
Wellcome Trust Genome Campus
Hinxton
Cambridgeshire, UK
CB10 1SD
p: +44 1223 492600
f: +44 1223 494468



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