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

Calin Voichita calin at
Thu Jun 28 09:18:12 PDT 2012


Our tools (Onto-Express / OE2GO) available at are able to deal with such
situations. After logging in, please select OE2GO and an input form will
appear that requires:

- differentially expressed transcripts (which is available)
- the list of all transcripts (which should be available as well)
- the annotation (which I see its available)
- the ontology (in obo format that can be downloaded at - currently we
only support v1.0

Don't hesitate to contact us for any further details.

Calin Voichita

-------- Original Message  --------
Subject: [go-friends] GO enrichment analysis - IDs not in database
From: Paola Roncaglia <paola at>
To: go-friends at
Cc: go-helpdesk at, "a.weig at"@domain.invalid
Date: Thu 28 Jun 2012 11:48:06 AM EDT

> 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:
> Many thanks,
> Paola Roncaglia

Calin Voichita
Ph.D. Candidate
Intelligent Systems and Bioinformatics Laboratory (ISBL)
Department of Computer Science  - Wayne State University
Phone: +1(313)577-5070              Fax: +1(313)577-6868
Detroit, MI 48202, USA

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