I have several gene list from up and down regulated genes of microarray.
1- How can I draw a coexpression network with my gene list?
2- How can I compare and combine two or three gene network?
Hi Benika
What is edgelist format? the output of microarray is just gene list and fold change.
and I think so, like overlap.
This question would require a rather long answer, since many are the ways of generating networks and overlap them. For this purposes, I always use Cytoscape ( www.cytoscape.org ). It's free, worldwide used and the site includes walkthrough tutorials. Hope that this will somehow help.
Cheers
How can we understand the relation between genes?
The cytoscape has a database to finding the relation between genes?
It really depends on what you consider a relation between genes. It could be co-expression, physical interaction of gene products, synthetic lethality. However, yes, you can install several plugins in cytoscape (for example GeneMania) which will retrieve from databases the relations between the genes in your list
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