For ESI-MS, the ionisation source was operated in positive mode and QTOF operated in resolution Vmode with HDMS E enabled for data-independent acquisition. The MS was calibrated with sodium iodide, and Leucine Enkephalin was used as lock mass for post-acquisition mass accuracy correction. Spectra were acquired between 50-2000 m/z with capillary voltage 3.0 kV, sample cone 20 V, and transfer collision energy (CE) ramping from 15-50 V. For 1-pass cIM routines, a 10 ms injection, 3 ms separation, and 34 ms ejection/acquire cyclic sequence was used with TW static height of 23 V, ADC start delay of 13 ms and using 2 pushes per bin. For multi-pass cIM routines, a 10 ms injection, 18.13 ms separation, and 34 ms ejection/acquire routine was used with a TW static height of 22 V, ADC start delay of 28 ms sec, and using 2 pushes per bin. To minimise peptide carry-over, the Enzymate digestion column was washed with pepsin wash (1.5 M Gu-HCl, 0.4% MeOH, 0.5% formic acid, pH 3) and a saw-tooth LC gradient was performed between sample injections.