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Putative gene finding in a proteome file

Dear All:

I have a proteome file of a non model organism. I would like to identify novel genes in the file. How can I do that?

Thank you.

rna-seq genome sequence gene
• 2,199 views • link
written by Mehmet Mehmet

Are these peptide fragments or longer translations from genome sequence?

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written by GenoMax GenoMax

translations from RNA.

• 1 views • link
written by Mehmet Mehmet

What do you mean by novel?

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written by sentausa sentausa

I mean genes which are unique to my organisms. Also, do you know how can I identify some protein related genes, such as genes related to Neuropeptides, peptides etc.?

• 1 views • link
written by Mehmet Mehmet

If there is a related genome available (for which a good proteome exists) then you could try to download that and then use blast searches to identify proteins that are homologous. Then for the ones that don't match anything significant you can start with widening the search out to UniProt/RefSeq databases.

There are also these resources that you can look at: http://www.peptideatlas.org/
http://www.matrixscience.com/search_form_select.html

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written by GenoMax GenoMax

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