TMT neutral losses | aj10 | 2024-04-11 14:47 | |||||||||||||||||||||||||||
Hello, I am trying to quantify neutral losses from TMT-tagged peptides (the reporter tag + CO). I'd like to include the neutral losses regardless of their presence in the spectra used to generate the spectral library. When adding each tag as a neutral loss to the N-terminus modification, I set the losses to be included by default. However, these transitions are not added by default to my spectral library. I can add them manually using the Pick Children option, but I've got more than 10k peptides. Second question. If we can resolve that, I only want the neutral losses from the precursor (i.e. not from every possible b ion). Is there a way to specify that and apply it to all peptides? I'm running the Skyline daily build downloaded last Friday. Thank you for your help! |
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