Select list of nodes in Cytoscape
1
0
Entering edit mode
10 weeks ago
qmarulfiz ▴ 60

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 • 192 views
ADD COMMENT
1
Entering edit mode
10 weeks ago
scooter ▴ 450

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

ADD COMMENT
0
Entering edit mode

Thank you!,

That what I just did!.

ADD REPLY

Login before adding your answer.

Traffic: 1604 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6