Question: GO enrichment - interpreting broad terms
0
gravatar for jmah
2.1 years ago by
jmah10
jmah10 wrote:

Hi all,

Looking at my GO enrichment analysis I see many very general terms eg. multicellular organismal process. How exactly does this get interpreted? Does this mean that the collection of proteins did not provide enough resolution to say that there was a more specific process going on?

From a list of enriched GO terms is it possible to extract only the ones closest to the leaf nodes? ie. weed out redundant terms that are closer to the root? Does anyone know a program that does that?

Thanks! Jasmine

go gene ontology • 1.1k views
ADD COMMENTlink modified 2.1 years ago by Chirag Parsania1.5k • written 2.1 years ago by jmah10

Recently I have developed a shiny app to cluster enriched GO terms which can help user to distinguish between GO involved in multiple phenomena and thus gene. You can access this from here

ADD REPLYlink written 2.1 years ago by Chirag Parsania1.5k
2
gravatar for Guangchuang Yu
2.1 years ago by
Guangchuang Yu2.2k
China/Guangzhou/Southern Medical University
Guangchuang Yu2.2k wrote:

using simplify in clusterProfiler to remove redundancy and help interpretation of GO enrichment result.

ADD COMMENTlink written 2.1 years ago by Guangchuang Yu2.2k

Thanks for pointing this out!

ADD REPLYlink written 2.1 years ago by jmah10
2
gravatar for Chirag Parsania
2.1 years ago by
Chirag Parsania1.5k
University of Macau
Chirag Parsania1.5k wrote:

Use topGO , specifically designed to get more specific enriched terms and not general broas terms ~C.

ADD COMMENTlink written 2.1 years ago by Chirag Parsania1.5k

Thanks! I will look into topGO. It sounds pretty close to what I'm interested in.

ADD REPLYlink written 2.1 years ago by jmah10
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