Question: How to perform GO annotation? Or assign GO ontology to list of genes?
0
gravatar for arsilan324
2.6 years ago by
arsilan32480
arsilan32480 wrote:

I am trying to use WEGO plot but unable to generate input file which looks like this.

Transcript_147815                           
Transcript_149264_1 GO:0003824  GO:0046872                  
Transcript_149264_1 GO:0004619  GO:0005737  GO:0006007  GO:0030145          
Transcript_137498_2 GO:0003700  GO:0006355  GO:0008270  GO:0043565          
Transcript_44554_2  GO:0003700  GO:0006355  GO:0008270  GO:0043565          
Transcript_132606_1                         
Transcript_132606_1                         
Transcript_150220   GO:0016491  GO:0055114                  
Transcript_61273_2  GO:0000287                      
Transcript_154436_4 GO:0003723                      
Transcript_154436_4 GO:0003676

It is mentioned that output of interproscan can be used. However, it is xml file and the server doesnt read it. Can anyone please comment how to do so, if someone has done it already. Thanks

wego go annotation • 998 views
ADD COMMENTlink modified 2.6 years ago by lieven.sterck9.4k • written 2.6 years ago by arsilan32480
1
gravatar for lieven.sterck
2.6 years ago by
lieven.sterck9.4k
VIB, Ghent, Belgium
lieven.sterck9.4k wrote:

Blast2GO or as you mention InterPro2GO are the best (most used) appoaches

for the interpro one, use tsv as output format which is a tabulated file from which you can easily get your desired output

ADD COMMENTlink written 2.6 years ago by lieven.sterck9.4k

Thanks! I found it...

ADD REPLYlink written 2.6 years ago by arsilan32480

would you like to share your solution?

ADD REPLYlink written 16 months ago by 1234anjalianjali123430
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