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Select list of nodes in Cytoscape

Maybe I didnt pay enough attention in the tutorial. But I am stuck now.

I have a network. It has 3 ID (MGI Gene symbol, Entrez ID, Ensmbl ID) I also have a list of GO Terms with ID of their genes in Entrez ID in a seperate .txt (opened using Excel). I want to group the genes in the network into their respectice GO Term.

Should I select the genes one by one? How to select multiple nodes in the Cytoscape network by using the list of Entrez ID of the specific GO Terms?

I tried to paste Entrez ID list in the Cytoscape search bar but it doesnt select the nodes.

Any help or guidance will be helpful!

Regards

cytoscape gene ontology biological network
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updated by scooter scooter • written by qmarulfiz qmarulfiz

1 answer

Greetings, Well, my approach would be to import the GO Terms into Cytoscape, assuming that your file somehow shows only one GO Term for each node (which would be a bit unusual). Now, you would have the GO Term column in the node table, and you can simply use the search bar to search for a particular GO term, which would select all of the relevant nodes. You could even use the Group Attributes layout, which will move all of the nodes for you.

-- scooter

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written by scooter scooter

Thank you!,

That what I just did!.

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written by qmarulfiz qmarulfiz

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