Representation and visualization of genetic regulatory networks

We present a new framework, Sonnet, for the interactive visualization of large, complex biological models that are represented as graphs. Sonnet provides a flexible representation framework and graphical user interface for filtering and layout, allowing users to rapidly visualize different aspects of a data set. Many previous approaches have required users to write customized software in order to achieve the same functionality. With Sonnet, once features of interest are identified, they can be captured as figures for offline presentation. We demonstrate the application of Sonnet to the visualization and manipulation of transcriptional regulatory networks in yeast. Sonnet is particularly well adapted to this application as native presentation of these networks yields dense and difficult to decipher results.

Department dc:contributor.department

Massachusetts Institute of Technology. Dept. of Electrical Engineering and Computer Science.

Grantor dc:publisher

Massachusetts Institute of Technology

Year dc:date.issued

2004

Author dc:creator

• Zhao, Dacheng

Advisor dc:contributor.advisor

• David Gifford.

• Electrical Engineering and Computer Science.

Statement dc:rights

• M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission.

Licence dc:rights.uri

• http://dspace.mit.edu/handle/1721.1/7582

Language dc:language.iso

eng

Handle dc:identifier.uri

http://hdl.handle.net/1721.1/42131

OAI identifier oai:identifier

oai:dspace.mit.edu:1721.1/42131