Gene regulatory network visualization and annotation

Question

[morteza.mahmoudisaber]

Analyzing Microarray data, I obtained a group of deferentially expressed genes and now I want to identify the gene regulatory networks in which these genes are over-represented, visualize these networks and annotate the networks.

As I searched, it seems that Cytoscape is the best software for this end, however, the tutorial for the software (version 3.4.0) did not addressed this issue so I was wondering if anyone could help me to figure this out.

Answer 1

[spacemorrissey]

I am not sure exactly what you are trying to do, but it seems that Reactome may suit your needs. http://www.reactome.org/

[morteza.mahmoudisaber]

@ spacemorrissey: Thank you. Reactome is exactly what I needed.