Power Graph Analysis with CyOog

Matthias Reimann

Biotechnology Center, Technische Universität Dresden, Germany

Biological Use Case:

General: Analysis of gigantic biological networks like protein interaction networks, sequence homology networks, or regulatory networks. The information you are looking for in such networks is hidden by a big mass of edges -- inside a 'fur ball' or 'hairy monster'. Instead of loosing valuable details in the networks by coarse-graining them using clustering techniques, Power Graph Analysis can be used. A power graph is a compressed version of a normal graph. The used transformation is completely reversible.

Example described here: Finding functional relationships among transcription factors in a huge regulatory network.

Recipe

Cytoscape version: Version number (2.6)

Plugins to Load: CyOog: http://www.biotec.tu-dresden.de/schroeder/group/powergraphs

GUI steps:

Describe each step (story), the GUI action to take, and probable remarks

Data / Session Files: Attach (preferably) a session file or else the data files used in the workflow

Presentation: Attach your presentation

Webstart:

http://www.biotec.tu-dresden.de/schroeder/group/powergraphs/download_cyplugin.html

It is still necessary to load session file separately!