I was wondering if anyone had any thoughts on this topic. Basically I want to use GOrilla to find enriched GO terms between two samples. GOrilla requires that you use genes from 1 of 8 model organisms. I am using a non-model organism (plant) so I was going to BLAST my genes against Protein_refseq from Arabidopsis thaliana...
But then I started to wonder if other organisms had better GO annotation. Clearly for BLASTing purposes Arabidopsis (the only plant on the list) would be best, but for getting GO terms is it?
For example, if one of my genes BLASTS to both human, mouse, and arabidopsis RNA Pol II genes, would all these results give me the same GO information, or do particular organisms genes have better GO annotation?
Cheers
But then I started to wonder if other organisms had better GO annotation. Clearly for BLASTing purposes Arabidopsis (the only plant on the list) would be best, but for getting GO terms is it?
For example, if one of my genes BLASTS to both human, mouse, and arabidopsis RNA Pol II genes, would all these results give me the same GO information, or do particular organisms genes have better GO annotation?
Cheers
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