GOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring.
We have implemented a graph layout algorithm that exposes Gene Ontology (GO) class structure on the network nodes. It can be used in conjunction with BiNGO plug-in to Cytoscape, which finds the GO categories over-represented in a given network. Our plug-in, named GOlorize, first highlights the class members with category-specific color-coding and then constructs an enhanced visualization of the network using a class-directed layout algorithm.


BACKGROUND
http://www.cytoscape.org/plugins2.php.


BACKGROUND
Installation instructions and tutorial at http://www.cytoscape.org/plugins/GOlorize/GOlorizeUserGuide.pdf.
Garcia
Olivier
O
Systems Biology Unit, Institut Pasteur, 75724 Paris Cedex 15, France.
Saveanu
Cosmin
C
Cline
Melissa
M
Fromont-Racine
Micheline
M
Jacquier
Alain
A
Schwikowski
Benno
B
Aittokallio
Tero
T
D000465:Algorithms; D003116:Color; D003196:Computer Graphics; D003198:Computer Simulation; D030562:Databases, Protein; D016247:Information Storage and Retrieval / Q000379:methods; D008954:Models, Biological; D020543:Proteome / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology*; D012984:Software; D014584:User-Computer Interface
D020543:Proteome