I have some proteomics data that was given to me with the UniProt gene identifiers in column 1. I've been trying to convert these to normal gene symbols using various programs, but it is proving to be difficult.
The Uniprot website does it fairly decently, but it is not able to convert all of them and then adds some unknown genes into my list.
For example, I will give it 5439 genes in UniProt notation, and will say "5420 of 5439 UniProt identifiers have been converted to 5450 gene symbols"... which is ridiculous.
I tried using David to change the symbols, but it returns them to me in some ridiculous, random order and there's no way I can sort... actually there might be but it'll take a second.
What are some of the easiest ways to do this? It's already very time consuming and am looking for simpler solutions