raw data cytoscape

[Maurizio Severino]

Dear Everybody

I have some questions about Cytoscape

- What is exactly the meaning of "edges" and "nodes"? 

- Why when I type "Parkinson" I get such a little network? In my world I would expect a far wider network. The output that I get seems to be limited. Could this be related to some restrictive criteria? If yes which one? 

Thank you in advance for all your support. 

Cheers

Maurizio

[Scooter Morris]

Hi Maurizio,

Happy to answer some questions, but you may need to be a bit more specific.  Cytoscape doesn't restrict the nodes and edges to any specific semantics, so your nodes could be proteins and your edges could be protein-protein interactions, or your nodes could be genes and edges could represent genetic interactions.  Some people use Cytoscape for non-biological use cases, so the nodes and edges would be very specific to their use case.  So to provide a better answer, how are you generating your network?   As far as your second question, where are you typing "Parkinson" that is giving you a network.  There are several apps you can load that will provide very different results with a query like that.  Do you have a specific app loaded?

-- scooter