Xuan Y, Damoc E, Kuehn A, Crone C, Kellmann M.
ASMS 2013 Poster
Purpose: Improved throughput and robustness in shotgun proteomics on a Thermo
Scientific™ Q Exactive™ mass spectrometer.
Methods: Tryptic HeLa digest was measured with data-dependent top15 experiments
on a nanoLC online coupled to a Q Exactive mass spectrometer (MS). Different AGC
target values for tandem MS/MS (T = 2e4, 5e4, 1e5, 5e5, 1e6, and 3e6) are
investigated.
Results: The number of identified proteins and peptides per single run reaches a
maximum at target value 1e5. Good quality of MS2 spectra can already be achieved
with 5e4, with a comparable peptide identification score to 1e6. Higher target ions
(> 1e5) for MS/MS do not increase the number of identified proteins, but decrease the
overall efficiency of the instrument in high-throughput proteomics applications.
Thermo Fisher Scientific
United States
