Protein analysis by shotgun/bottom-up proteomics

Y Zhang, BR Fonslow, B Shan, MC Baek… - Chemical …, 2013 - ACS Publications
According to Genome Sequencing Project statistics (http://www. ncbi. nlm. nih.
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …

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 …

Online parallel accumulation–serial fragmentation (PASEF) with a novel trapped ion mobility mass spectrometer

F Meier, AD Brunner, S Koch, H Koch, M Lubeck… - Molecular & Cellular …, 2018 - ASBMB
In bottom-up proteomics, peptides are separated by liquid chromatography with elution peak
widths in the range of seconds, whereas mass spectra are acquired in about 100 …

Drift time-specific collision energies enable deep-coverage data-independent acquisition proteomics

U Distler, J Kuharev, P Navarro, Y Levin, H Schild… - Nature …, 2014 - nature.com
We present a data-independent acquisition mass spectrometry method, ultradefinition (UD)
MSE. This approach utilizes ion mobility drift time-specific collision-energy profiles to …

Label-free quantification in ion mobility–enhanced data-independent acquisition proteomics

U Distler, J Kuharev, P Navarro, S Tenzer - Nature protocols, 2016 - nature.com
Unbiased data-independent acquisition (DIA) strategies have gained increased popularity in
the field of quantitative proteomics. The integration of ion mobility separation (IMS) into DIA …

Mass spectrometry-based proteomics: existing capabilities and future directions

TE Angel, UK Aryal, SM Hengel, ES Baker… - Chemical Society …, 2012 - pubs.rsc.org
Mass spectrometry (MS)-based proteomics is emerging as a broadly effective means for
identification, characterization, and quantification of proteins that are integral components of …

High-throughput proteomics

Z Zhang, S Wu, DL Stenoien… - Annual review of …, 2014 - annualreviews.org
Mass spectrometry (MS)–based high-throughput proteomics is the core technique for large-
scale protein characterization. Due to the extreme complexity of proteomes, sophisticated …

Recent developments in liquid chromatography–mass spectrometry and related techniques

M Holčapek, R Jirásko, M Lísa - Journal of Chromatography A, 2012 - Elsevier
This review summarizes the state-of-art in liquid chromatography–mass spectrometry (LC–
MS) and related techniques with the main focus on recent developments in the last decade …

Ion mobility mass spectrometry of peptide ions: effects of drift gas and calibration strategies

MF Bush, IDG Campuzano, CV Robinson - Analytical chemistry, 2012 - ACS Publications
One difficulty in using ion mobility (IM) mass spectrometry (MS) to improve the specificity of
peptide ion assignments is that IM separations are performed using a range of pressures …

MaxQuant software for ion mobility enhanced shotgun proteomics

N Prianichnikov, H Koch, S Koch, M Lubeck… - Molecular & Cellular …, 2020 - ASBMB
Ion mobility can add a dimension to LC-MS based shotgun proteomics which has the
potential to boost proteome coverage, quantification accuracy and dynamic range. Required …