Abstract
As a technique for characterising proteins, tryptic digestion followed by data dependant LC-MS/MS is well established. However, in complex biological mixtures, with a wide dynamic range, the majority of the peptides observed are in the lowest order of magnitude that can be detected, and despite tandem MS experiments, singly charged chemical noise present in the MS/MS spectrum can hinder precursor identification. In addition, cross-linked peptides containing >2 charges are often at low stoichiometry compared with tryptic peptides, and as such it may be difficult for the mass spectrometer to identify these in the MS survey as candidate precursors.
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