GO enrichment analysis on my own gene list
1
0
Entering edit mode
4.0 years ago
qxu062 • 0

I have a list of genes which I am interested among 5 plant genomes. All of these genes are grouped to Gene Families based on gene pairwise comparison score( similarity score). the format is

 #geneName       chr       GeneFamily_ID      start     end     genome_ID
...

I want to do GO enrichment analysis on that to get GO terms but I do not know how to create the input file for the GO analysis. besides some genomes is not in the standard model.

I plan to use the goatool from https://github.com/tanghaibao/goatools

I am totally new to use that so if you could give me any suggestion, I am appreciated

gene GO enrichment analysis RNA-Seq • 871 views
ADD COMMENT
0
Entering edit mode

you can use https://biit.cs.ut.ee/gprofiler/ or Cytoscape based CLuego AAP.

ADD REPLY
0
Entering edit mode
4.0 years ago

Try this web service http://plantregmap.cbi.pku.edu.cn/go.php. It contains many databases for GO enrichment analysis.

You only need to select your specie and include the name of the genes to analyze. You can also download the databases

ADD COMMENT

Login before adding your answer.

Traffic: 3085 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6