Question: Any web based tool to depict long list of GO terms
0
gravatar for Bioinformatician_in_trouble
10 months ago by

hi, How do i show a long list of GO term obtained from STRING analysis in my manuscript?I sure could include it in tabular form but was wondering if there are any other ways to show. I have tried REVIGO but the list is so big that REVIGO tree map doesn't come out clear. edit: I understand there is python package called CirGO but was looking for non coding options.

rna-seq next-gen • 423 views
ADD COMMENTlink modified 10 months ago • written 10 months ago by Bioinformatician_in_trouble10

Thank you both for your answers, i will probably go ahead with g:Profiler!

ADD REPLYlink written 10 months ago by Bioinformatician_in_trouble10
3
gravatar for Leite
10 months ago by
Leite1.0k
São Paulo - Brazil - Unifesp
Leite1.0k wrote:

Dear @ Bioinformatician_in_trouble

An interesting way to show enriched pathways is through dotplot here are some examples (including code)

Question: DAVID gene ontology using dotplot

Question: Dotplot for filtered pathways result

Another way is with bar charts, like this:

enter image description here

Reference

But all these options are code based. One tip, if you are going to continue in bioinformatics, learn the basics of R and python.

Returning to the question, I think a non-code based output would be FunRich, g:Profiler and WEB-based GEne SeT AnaLysis Toolkit

ADD COMMENTlink modified 10 months ago • written 10 months ago by Leite1.0k
1
gravatar for Mark
10 months ago by
Mark800
Mark800 wrote:

Try g:Profiler but all the good visualisations are going to need some coding.

ADD COMMENTlink written 10 months ago by Mark800
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