Can I make gene interaction network with cytoscape? I have the genes and the expression rates of them in an excel file. I would like to make a net work with them in cytoscape.
Greetings,
As suggested by Matthias, the short answer is "yes", you certainly can make a gene interaction network. A longer answer would be to ask "What kind of interaction?". You mention you have expression values, so one kind of network you might look at is a co-expression network - where the edges represent the correlation between two genes based on their expression values. You could also use something like the stringApp or IntActApp to create a protein-protein interaction network based on the genes you have, and then map your expression values onto the nodes.
-- scooter
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And what is stopping you from doing that? Your use case is literally the exact content of Cytoscape's beginner's tutorial, so you have a perfectly detailed out manual to follow step by step.