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[go-friends] [go-helpdesk] GO Terms absent from a protein list; negative enrichment?

Rachael Huntley huntley at ebi.ac.uk
Mon Jan 30 00:39:24 PST 2012


Hi Adam,

I'm also forwarding your request to the go-friends list to which many GO 
tool developers are subscribed and might be able to suggest something 
for you.

Best wishes,
Rachael.
>
> ___________________________________________________
> From:<adam.byron at manchester.ac.uk>
> Date: Fri, 27 Jan 2012 06:40:42 -0800
> To:<go-helpdesk at mailman.stanford.edu>
> Subject: GO Help query (from website)
>
>
> Email: adam.byron at manchester.ac.uk
> Name: Tools (from Adam Byron)
> Text: Hi. I am trying to determine which GO terms are absent from my list of
> identified proteins. I have performed underrepresentation enrichment
> analysis
> in BiNGO and FuncAssociate, but am getting limited information from this. It
> appears that underrepresentation analysis requires at least evidence for a
> GO
> term in the submitted protein list, albeit underrepresented compared to the
> proteome. Can you recommend any tools or techniques that may be appropriate
> for determining what is NOT in my dataset, rather than what is?
> Thanks in advance.
> Adam
>
>
> _______________________________________________
> go-helpdesk mailing list
> go-helpdesk at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/go-helpdesk


-- 
Senior Scientific Curator
UniProt-GOA
European Bioinformatics Institute
Wellcome Trust Genome Campus
Hinxton
Cambridge, CB10 1SD
UK

Email: huntley at ebi.ac.uk
GOA: http://www.ebi.ac.uk/GOA
http://twitter.com/emblebi




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