I want to overlay pathway information to genes, mapped onto Biogrid database accessible via Cytoscape and visualize using Cytoscape.
Basically I have about 200 overexpressed genes and I have obtained information about which pathways they map.
According to various answers here it seems I have to prepare two files -- the overexpressed gene list file and the tab delimited attribute file( gene plus associated pathway) and import it into Cytoscape. The attribute file should like so considering one gene may map to multiple pathways
gene1 pathway1 gene2 pathway2 gene1 pathway3 .......
I'm using Cytoscape 3.2.1 which is the newest version. How do I overlay the pathway information to my genes on the network? I want to color code pathway information in such a way that different pathway will have different color. Is this possible to do with Cytoscape? My aim is to actually see how gene-to-pathway information is structured on the network. I'm a beginning user in Cytoscape and what is particularly confusing me right now is that I don't see Import Attribute function that should at least help me learn by doing? What can I do?
Thanks for your help. Look forward.