Table 1 Influence of different SIMSEF parameters on the scheduling of TIMS-MS2 precursors

From: On-tissue dataset-dependent MALDI-TIMS-MS2 bioimaging

Method

Purity score

Quadrupole switch time / ms

Minimum distance of MS2 pixels/pixel

MS2 pixels

Precursor

MS2 events

Spectra coverage (SC)

Precursors/spot (avg/max)

1

0.8

1.65

20

6477

1396

28,916

69.0%

4.5/13

2

0.8

1.00

20

6224

1396

29,205

69.7%

4.7/16

3

0.8

1.65

5

6508

1397

29,704

70.9%

4.6/14

4

0.6

1.65

20

6996

1503

33,528

74.4%

4.8/13

5

0.6

1.00

5

6725

1503

34,895

77.4%

5.2/17

  1. Changed parameters are printed in bold font. The TIMS-MS1 imaging dataset of sample R2c_1a (ramp time 150 ms, MS1 pixels 16,161, scheduling for 6 different collision energies with a replicate number of 5 MS2) was used. A total of 1514 precursor ions had at least one signal above an intensity of 5000 and were thereby eligible for scheduling. TIMS-MS2 scans were only scheduled if the intensity in a pixel exceeded 3000 and 20% of the maximum intensity. The final number of scheduled precursors is lower due to constraints on isolation purity, spatial restrictions, and quadrupole switch time.
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