MS1 based quantification optimization on DIA methods on a quadrupole-Orbitrap mass spectrometer

[Orbitrap_SciLib]

Yue Xuan1, Roland Bruderer2, Oliver Bernhardt2 ,Tejas Gandhi2 , Lukas Reiter2 , Andreas F. Huhmer3, Thomas Moehring1

Targeted analysis of data-independent acquisition (DIA) is a powerful mass spectrometric approach for comprehensive, reproducible and precise proteome quantitation, enabling the identification of the majority of expressed proteins. With this achievements in the identification, the reproducibility and quantitative accuracy and precision have become increasingly important. MS1 scans have potentially a higher sensitivity since the peptide precursor is not fragmented in multiple fragments. Here, we optimize data-independent acquisition (DIA) on a Thermo Scientific™ Q Exactive™ HF mass spectrometer for quantification on the MS1 level, and using Spectronaut software for DIA data analysis.


1Thermo Fisher Scientific, Bremen, Germany 2 Biognosys AG, Schlieren, Switzerland 3Thermo Fisher Scientific, San Jose, USA