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Pie Chart view of Gene Ontology percentages

Nathan Salomonis nsalomonis at
Wed May 18 10:05:43 PDT 2005

Will do.







From: Sorin Draghici [mailto:sorin at] 
Sent: Wednesday, May 18, 2005 9:38 AM
To: Nathan Salomonis
Cc: purvesh at; gofriends at
Subject: Re: Pie Chart view of Gene Ontology percentages



Onto-Express actually constructs the pie charts for you and lets you save
them as images. It also allows you to customize the chart by grouping
uninteresting categories under "Other" and emphasizing important categories
by taking them out of "Others" even if they have only few genes, etc. Play
with it before you go back to Excel. 



Nathan Salomonis wrote: 

Thanks Purvesh. The numerical output of terms from Flat View should be easy
to build a pie chart with in Excel.
Best Regards,
-----Original Message-----
From: Purvesh Khatri [mailto:purvesh at] 
Sent: Tuesday, May 17, 2005 5:27 PM
To: Nathan Salomonis
Cc: Sorin Draghici
Subject: Re: Pie Chart view of Gene Ontology percentages
I think Onto-Express can do the job you are looking for. Onto-Express is
available at
Please let us know if you have any question/comments.
Best regards,
On Tuesday 17 May 2005 07:54 pm, Nathan Salomonis wrote:

I was wondering if anyone new of a program that will take an input set of
genes, for example a whole dataset, that is divided into groups (e.g.
clusters) and not only identify over-represented GO terms in each cluster
put generate a graphical pie chart showing the percentages of high level


terms aligning with that cluster? Several genome annotation papers display
this type of output; however I'm not sure if there is a program that
generates this type of display.
Nathan Salomonis
University of California, San Francisco
Pharmaceutical Sciences and Pharmacogenomics
GenMAPP (Gene Map Annotator and Pathway Profiler)
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Sorin Draghici, Ph.D. 
Director of the Bioinformatics Core, Karmanos Cancer Institute
Associate Professor            Tel: (313) 577-5484
Dept. of Computer Science      Fax: (313) 577-6868
Wayne State University
5143 Cass Ave, Room 431 State Hall, 
Detroit, MI, 48202
WWW: (personal)
WWW: (lab)
Check out my recent book: Data Analysis Tools for Microarrays:
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