Experiment
|
# Peptides Before Deisotoping
|
# Peptides After Deisotoping
|
# New Peptides
|
% New Peptides
|
---|
1
|
218
|
271
|
53
|
31%
|
2
|
178
|
208
|
30
|
17%
|
3
|
204
|
250
|
46
|
33%
|
4
|
379
|
442
|
63
|
34%
|
5
|
320
|
391
|
71
|
35%
|
Average
|
259.8
|
312.4
|
52.6
|
30%
|
- High resolution Orbitrap HCD MS/MS spectra of high charge state (z > 2+) precursors were frequently not assigned to a peptide sequence due to the presence of multiple isotope peaks per fragment ion. We processed the peak lists (MGF format) using an .mz script to only retain mono-isotopic and singly charged fragment ion peaks. Subsequent research of these data provided an average increase of 30% in the number of high-confidence (Mascot score > 30) peptide assignments across 5 LC-MS runs.