I've got microarray transcriptomic data (from S. cerevisiae) - and I've made GO enrichment analyses - since there were many redundant GO terms I've used REVIGO for getting rid of them but I found this tool not accurate enough (I mean that I still have some doubts whether I get rid of right terms). Is there any other tool (for total bioinformatic dummy) that makes similar work as REVIGO - so I could compare if obtained results are similar or not?
Not en expert, but I foound this tool:
http://cbl-gorilla.cs.technion.ac.il/
Also, here is not so short list of similar (I hope so) tools:
ftp://ftp.geneontology.org/go/www/GO.tools_by_type.visualization.shtml
Hi Joana
Most of times there are some GO terms which might be redundant (or not relevant to your research). You may sort them by their p-value and report ones with lower p-values first. By the way, how did you do your GO analysis?
Regards
Thank you Anton Vrdoljak I will check your recommendations. Maybe I'll find something helpful:) Thank you Ali Javadmanesh for the tip, I'll check these p-values. And answering your question for GO enrichment analysis I've used one of the Cytoscape app called BinGO :)
Hi Joanna
I recommend the ClueGo app from Cytoscape with a very nice visual network of your GO term and not genes.
Regards
Ali Javadmanesh I've actually installed it yesterday but since you need a licence from the ClueGO authors I'm waiting for their answer :)
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