BINGO Cytoscape

Question

[phoenix.sum13]

How do you interpret GO enrichment results from BINGO plugin in Cytoscape? There are many repetitive GO terms and simple terms e.g. Biological Process. Is there a way to reduce these repetitive terms? I am new to BINGO and GO analysis so any guidance will be really helpful. Thank you!

[lieven.sterck]

not sure for the BiNGO approach but perhaps you can go with GOslim annotations? Those should be less 'redundant'

[phoenix.sum13]

Thank you so much.

Answer 1

[scooter]

Greetings,

I would recommend using stringApp rather than BiNGO if you want to remove redundant terms. stringApp has a feature that allows you to filter the ontologies used and to remove the redundant terms (using Jaccard similarity).

-- scooter

[phoenix.sum13]

Thank you so much. I tried String and ClueGO and it helped me a lot.