|New to Skyline: Searching for specific MS2 ions||irahman2||2019-06-10|
I am a new user to Skyline, and would like some help to do some MS2 searching/filtering.
To explain the experimental setup: I have a bait peptide that has a reactive group that can covalently crosslink with C-H/C-X bonds on the target molecule. I would like to search through all the MS2 spectra for known daughter ions of my bait peptide so I can identify the precursor mass that corresponds to some adduct. I have a hunch that the peptide is actually binding to some lipid molecule if that is helpful.
Is Skyline an appropriate software to do this kind of searching, or are there other programs I should look into?