Search Mailing List Archives
Pie Chart view of Gene Ontology percentages
sorin at wayne.edu
Wed May 18 08:07:57 PDT 2005
Onto-Express, one of the Onto-Tools, will do this and much more. The
Onto-Tools are available at: http://vortex.cs.wayne.edu
Some of the papers describing Onto-Express (all can be downloaded from
the same site):
Purvesh Khatri, Pratik Bhavsar, Gagandeep Bawa and Sorin Draghici.
Onto-Tools: an ensemble of web-accessible, ontology-based tools for the
functional design and interpretation of high-throughput gene expression
Nucleic Acids Research, 32:W449-W456, July 2004.
Sorin Draghici, Purvesh Khatri, Pratik Bhavsar, Abhik Shah, Stephen
Krawetz and Michael A. Tainsky. Onto-Tools, The toolkit of the modern
biologist: Onto-Express, Onto-Compare, Onto-Design and Onto-Translate
<http://vortex.cs.wayne.edu/papers/OntoToolsToolkit.pdf>. Nucleic Acids
Research, 31(13):3775-81, July 2003.
Sorin Draghici, Purvesh Khatri, Rui P. Martins, G. Charles Ostermeier
and Stephen A. Krawetz. Global functional profiling of gene expression
81(2):98-104, Feb 2003.
Purvesh Khatri, Sorin Draghici, G. Charles Ostermeier, Stephen A.
Krawetz - Profiling Gene Expression Utilizing Onto-Express
79(2):266-270, Feb 2002.
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 GO
>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.
>University of California, San Francisco
>Pharmaceutical Sciences and Pharmacogenomics
>GenMAPP (Gene Map Annotator and Pathway Profiler)
>This message is from the GOFriends moderated mailing list. A list of public
>announcements and discussion of the Gene Ontology (GO) project.
>Problems with the list? E-mail: owner-gofriends at geneontology.org
>Subscribing send "subscribe" to gofriends-request at geneontology.org
>Unsubscribing send "unsubscribe" to gofriends-request at geneontology.org
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: http://vortex.cs.wayne.edu/Sorin/ (personal)
WWW: http://vortex.cs.wayne.edu/Projects.html (lab)
Check out my recent book: Data Analysis Tools for Microarrays:
-------------- next part --------------
An HTML attachment was scrubbed...
More information about the go-friends