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MS analysis was performed in data-dependent MS/MS scan mode, spray voltage was 2.0 kV, MS full scan range was 300 1600 m/z, AGC was set as 3e 6, resolution at 400 m/z was 70,000, the maximum ion injection time was 60 ms.
For the analysis of unlabeled peptides, the instrument method consisted of a full MS scan (scan range 375 1550 m/z, with 30K FWHM resolution @ m/z = 400, target value 2×106, maximum ion injection time of 500 ms) followed by data-dependent CID scans of the six most intense precursor ions.
Maximum ion injection time was 100 ms, and normalized collision energy was 35%.
Maximum ion injection times for MS1 and MS2 were 500 and 100 ms, respectively.
Automatic gain control (AGC) was set to 5 × 10 and maximum ion injection time (IT) was set to 200 ms.
The maximum ion injection time was set to 20 ms for full MS scans and 120 ms for MS/MS.
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Collision energy was set to 45, maximum inject time was 250 ms and maximum ion count was 1 × 10 counts.
Stavrinidou, E. et al. A simple model for ion injection and transport in conducting polymers.
The source magnet is adjusted to maximum electron trap current rather than for maximum ion current.
(A) Particle deposition with no ion injection.
Ion injection and mass analysis parallelization can be employed up to resolution 130 000 (512 ms transient).
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