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
Story |
Action |
Remarks |
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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!