Hello all,
I'm wondering what the best source for paralogue information is. I want to use a gene as a query and receive a sequence list of closely related paralogous genes ( without orthologues). Does anyone know the best way to do this ? Its easy enough to find them manually for one gene, but as I'm looking to develop a high-throughput method I would like a dedicated source that can work as part of a script.
Cheers!
3 answers
Have you searched under the paralogues tag?
See "How to find paralogues?" question and accepted answers.
have you come across Duplicated gene database before? Would that be useful?
There isn't a perfect or all encompassing solution, because it depends a bit on what organisms you want included. Ensembl includes data for all of the organisms in their database, including inparalogs. You can Actually just use the BioMart part of Ensembl to construct the query and get everything back as a CSV file. But that only covers a fairly limited range of organisms unfortunately.
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