Gene Enrichment Analysis

Question

[BioGeek]

Many GO analysis tools do not recognize gene IDs from non-model organisms. Could we use a homology-based approach to map these IDs and perform gene enrichment analysis?

[dthorbur]

You can use an approach mapping one-to-one orthologs with a well-annotated model organism, but you lose a lot of information on the many-to-one/one-to-many orthologs, or those genes unique to your non-model organism.

Alternatively, if you annotate your own annotations with GO terms, you can use a tools like g:Profiler2 which allows you provide your own custom dataset. Tutorial here.