Genome annotation visual representation

Question

[caro-ca]

Hi, community!

I am looking for a program that easy organizes my Interproscan results in general charts. I tried to use GO but it is not easy to explain the general view of my results or do you have any other recommendation to show the functional annotation in an easy way?
Thank you in advance for any help.

Answer 1

[jonasmlambert]

Hi, Blast2GO can do InterProScan and creates different summary charts. If you kept the XML results of the InterProScans you can import them.

Its basic version is free: https://www.blast2go.com/ and its also part of OmicsBox with a free trial: https://www.biobam.com/omicsbox/

[caro-ca]

Thank you! I will try it.

[caro-ca]

Hi again! I am using Blast2go and it seems very useful, however, I don't understand the results I am getting from the GO graphs. I uploaded two Interproscan files: (1) about protein-coding genes candidates, (2) effector Candidates. Both files are from the same organism. The only difference is that for file (2) I used Signalp and Effectorp to detect effector candidates and then I used the Interproscan command line.

Now, when I plot the GO terms, the graphics are the same for file (1) and (2), even though the number of GO terms vary significantly.

For file (1): Total protein-coding genes = 11.874 Goterms = 6.198

For file (2): Effector proteins = 128 Goterms = 36

So my question is why am I having the exact similar GO graphs if the GO terms, for molecular and biological processes, vary in number for each file.
Thank you in advance for your help.