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Can I use Skyline if.... tnapolitano  2018-07-30 14:24
 

Can I use skyline if I have only mass data from MS analysis of a crude venom duct?

I have two data sets: one is transcriptomic data of mature venom peptide sequences from marine snails, and the other data set is only masses from crude marine snail venom extracts. Can I use skyline to compare these two data sets? If not, any suggestions?
 
 
Nick Shulman responded:  2018-07-30 14:59
I am not sure that I understand your question.

It sounds like you might be asking whether you can use Skyline with transition lists where you do not know peptide sequences, or chemical formulas: all you have are m/z values of precursors and transitions.

Skyline does support transition lists like that. You might want to take a look at some of the small molecule tutorials such as:
https://skyline.ms/wiki/home/software/Skyline/page.view?name=tutorial_small_molecule
or
https://skyline.ms/wiki/home/software/Skyline/page.view?name=tutorial_small_quant