Question: Gene enrichment analysis
0
gravatar for Ambika
2.6 years ago by
Ambika30
United States
Ambika30 wrote:

Hello everyone,,

I am working with RNAseq data from a fungi for which we don't have genome annotation. I have a draft genome and list of predicted genes from Augustus. From RNAseq I have list of genes for which I want to do enrichment analysis. I tried to use DAVID for which I tried to get UniProt ID, but this does not work for me since they don't have option to scan the list. I am also trying BLast2Go but it is taking a long time. I also did InterProscan from which I have Pfam Ids. I tried to convert Pfam ID to UniPro ID but it gives me a list of ID for a Pfam Id.

Can you suggest some better option for my case or can you please pinpoint what I am missing. I will really appreciate your help.I need to graduate soon but this is going nowhere.

Thank you, Ambika

ADD COMMENTlink modified 2.6 years ago by Buffo1.8k • written 2.6 years ago by Ambika30
2
gravatar for Buffo
2.6 years ago by
Buffo1.8k
Buffo1.8k wrote:

Try with FungiDB it has GO and some others strategies.

ADD COMMENTlink written 2.6 years ago by Buffo1.8k

Thank you I will try that

ADD REPLYlink written 2.6 years ago by Ambika30
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