Trapped ion mobility spectrometry and parallel accumulation–serial fragmentation in proteomics

F Meier, MA Park, M Mann - Molecular & Cellular Proteomics, 2021 - ASBMB
Recent advances in efficiency and ease of implementation have rekindled interest in ion
mobility spectrometry, a technique that separates gas phase ions by their size and shape …

Adding a new separation dimension to MS and LC–MS: what is the utility of ion mobility spectrometry?

V d'Atri, T Causon, O Hernandez‐Alba… - Journal of separation …, 2018 - Wiley Online Library
Ion mobility spectrometry is an analytical technique known for more than 100 years, which
entails separating ions in the gas phase based on their size, shape, and charge. While ion …

diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition

F Meier, AD Brunner, M Frank, A Ha, I Bludau… - Nature …, 2020 - nature.com
Data-independent acquisition modes isolate and concurrently fragment populations of
different precursors by cycling through segments of a predefined precursor m/z range …

Deep learning the collisional cross sections of the peptide universe from a million experimental values

F Meier, ND Köhler, AD Brunner, JMH Wanka… - Nature …, 2021 - nature.com
The size and shape of peptide ions in the gas phase are an under-explored dimension for
mass spectrometry-based proteomics. To investigate the nature and utility of the peptide …

Benchmark comparison for a multi-processing ion mobility calculator in the free molecular regime

V Shrivastav, M Nahin, CJ Hogan… - Journal of the …, 2017 - ACS Publications
A benchmark comparison between two ion mobility and collision cross-section (CCS)
calculators, MOBCAL and IMoS, is presented here as a standard to test the efficiency and …

Improving phosphoproteomics profiling using data-independent mass spectrometry

A Srinivasan, JC Sing, AC Gingras… - Journal of Proteome …, 2022 - ACS Publications
Mass spectrometry-based profiling of the phosphoproteome is a powerful method of
identifying phosphorylation events at a systems level. Most phosphoproteomics studies have …

High-coverage four-Dimensional data-independent acquisition proteomics and phosphoproteomics enabled by deep learning-driven multidimensional predictions

M Chen, P Zhu, Q Wan, X Ruan, P Wu, Y Hao… - Analytical …, 2023 - ACS Publications
Four-dimensional (4D) data-independent acquisition (DIA)-based proteomics is a promising
technology. However, its full performance is restricted by the time-consuming building and …

Considerations for defining+ 80 Da mass shifts in mass spectrometry-based proteomics: phosphorylation and beyond

LA Daly, CJ Clarke, A Po, SO Oswald… - Chemical …, 2023 - pubs.rsc.org
Post-translational modifications (PTMs) are ubiquitous and key to regulating protein function.
Understanding the dynamics of individual PTMs and their biological roles requires robust …

Global phosphoproteome analysis using high-field asymmetric waveform ion mobility spectrometry on a hybrid orbitrap mass spectrometer

LK Muehlbauer, AS Hebert, MS Westphall… - Analytical …, 2020 - ACS Publications
Mass spectrometry is the premier tool for identifying and quantifying protein phosphorylation
on a global scale. Analysis of phosphopeptides requires enrichment, and even after the …

Native top-down mass spectrometry and ion mobility spectrometry of the interaction of tau protein with a molecular tweezer assembly modulator

M Nshanian, C Lantz, P Wongkongkathep… - Journal of the …, 2018 - ACS Publications
Native top-down mass spectrometry (MS) and ion mobility spectrometry (IMS) were applied
to characterize the interaction of a molecular tweezer assembly modulator, CLR01, with tau …