Ion Activation Methods for Peptides and Proteins

Letter to the editors

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Protein Analysis by Shotgun/Bottom-up Proteomics

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Ion mobility–mass spectrometry

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Fragmentation pathways of protonated peptides

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Data‐independent acquisition‐based SWATH‐MS for quantitative proteomics: a tutorial

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The power of ion mobility-mass spectrometry for structural characterization and the study of conformational dynamics

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Hydrogen exchange mass spectrometry for studying protein structure and dynamics

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Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra

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Native Mass Spectrometry: What is in the Name?

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Disulfide bonds as switches for protein function.

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Progress in Top-Down Proteomics and the Analysis of Proteoforms

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Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

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Chromatogram libraries improve peptide detection and quantification by data independent acquisition mass spectrometry

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Disulfide bond structures of IgG molecules

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Collision‐Induced Dissociation (CID) of Peptides and Proteins

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

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Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry

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Ion mobility mass spectrometry of proteins and proteinassemblies

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Fundamentals of ion mobility spectrometry

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Hydrophobic interaction chromatography of proteins

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The beginning of a beautiful friendship: Cross-linking/mass spectrometry and modelling of proteins and multi-protein complexes

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Parallel Reaction Monitoring: A Targeted Experiment Performed Using High Resolution and High Mass Accuracy Mass Spectrometry

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Development of a Novel Cross-linking Strategy for Fast and Accurate Identification of Cross-linked Peptides of Protein Complexes

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Mass spectrometry approaches to glycomic and glycoproteomic analyses

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Best practices and benchmarks for intact protein analysis for top-down mass spectrometry

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Fundamentals of ion mobility spectrometry

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Probing protein structure by amino acid‐specific covalent labeling and mass spectrometry

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Supplemental Activation Method for High-Efficiency Electron-Transfer Dissociation of Doubly Protonated Peptide Precursors

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A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition

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BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes

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Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology

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Detailed Unfolding and Folding of Gaseous Ubiquitin Ions Characterized by Electron Capture Dissociation

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Mass Spectrometry Applied to Bottom-Up Proteomics: Entering the High-Throughput Era for Hypothesis Testing

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Photodissociation mass spectrometry: new tools for characterization of biological molecules

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Selective Focusing of Catecholamines and Weakly Acidic Compounds by Capillary Electrophoresis Using a Dynamic pH Junction

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Toward Full Peptide Sequence Coverage by Dual Fragmentation Combining Electron-Transfer and Higher-Energy Collision Dissociation Tandem Mass Spectrometry

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Ultraviolet Photodissociation Mass Spectrometry for Analysis of Biological Molecules

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Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification

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Comprehensive Single-Shot Proteomics with FAIMS on a Hybrid Orbitrap Mass Spectrometer

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Simultaneous Qualitative and Quantitative Analysis of theEscherichia coli Proteome

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Phosphoproteomics in the Age of Rapid and Deep Proteome Profiling

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Disulfide Bonding in Protein Biophysics

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An integrated native mass spectrometry and top-down proteomics method that connects sequence to structure and function of macromolecular complexes

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Surface-induced dissociation of molecular ions

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Ion Activation Methods for Peptides and Proteins

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Capturing site-specific heterogeneity with large-scale N-glycoproteome analysis

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Collision induced unfolding of isolated proteins in the gas phase: past, present, and future

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Ultraviolet photofragmentation of biomolecular ions

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The diverse and expanding role of mass spectrometry in structural and molecular biology

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Protein Hydrogen Exchange Measured at Single-Residue Resolution by Electron Transfer Dissociation Mass Spectrometry

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Mass Spectrometry Identifiable Cross-Linking Strategy for Studying Protein−Protein Interactions

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Top-Down Proteomics: Ready for Prime Time?

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Hydrogen/Deuterium Exchange Mass Spectrometry with Top-Down Electron Capture Dissociation for Characterizing Structural Transitions of a 17 kDa Protein

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Electron-Transfer/Higher-Energy Collision Dissociation (EThcD)-Enabled Intact Glycopeptide/Glycoproteome Characterization

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Mass Spectrometry of Protein Complexes: From Origins to Applications

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Cross‐Linking/Mass Spectrometry for Studying Protein Structures and Protein–Protein Interactions: Where Are We Now and Where Should We Go from Here?

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

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The Role of Electron Transfer Dissociation in Modern Proteomics

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An Advanced Strategy for Comprehensive Profiling of ADP-ribosylation Sites Using Mass Spectrometry-based Proteomics*

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Intramolecular Migration of Amide Hydrogens in Protonated Peptides upon Collisional Activation

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High-fidelity mass analysis unveils heterogeneity in intact ribosomal particles

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Efficient and robust proteome-wide approaches for cross-linking mass spectrometry

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Elucidating crosstalk mechanisms between phosphorylation and O-GlcNAcylation

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Top-down characterization of endogenous protein complexes with native proteomics

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Hybrid mass spectrometry approaches in glycoprotein analysis and their usage in scoring biosimilarity

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Accurate Sequence Analysis of a Monoclonal Antibody by Top-Down and Middle-Down Orbitrap Mass Spectrometry Applying Multiple Ion Activation Techniques

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Infrared multiphoton dissociation in quadrupole ion traps

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A Simple Cross-Linking/Mass Spectrometry Workflow for Studying System-wide Protein Interactions

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Protein conformations can be probed in top-down HDX MS experiments utilizing electron transfer dissociation of protein ions without hydrogen scrambling

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Ultraviolet Photodissociation: Developments towards Applications for Mass‐Spectrometry‐Based Proteomics

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Two decades of studying non-covalent biomolecular assemblies by means of electrospray ionization mass spectrometry

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Improving Precursor Selectivity in Data-Independent Acquisition Using Overlapping Windows

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Surface Induced Dissociation: Dissecting Noncovalent Protein Complexes in the Gas phase

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Characterization of Native Protein Complexes Using Ultraviolet Photodissociation Mass Spectrometry

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Top-Down Proteomics of Large Proteins up to 223 kDa Enabled by Serial Size Exclusion Chromatography Strategy

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Surface-induced dissociation of small molecules, peptides, and non-covalent protein complexes

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Top or Middle? Up or Down? Toward a Standard Lexicon for Protein Top-Down and Allied Mass Spectrometry Approaches

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Visible and ultraviolet spectroscopy of gas phase protein ions

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Toward an Optimized Workflow for Middle-Down Proteomics

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The benefits of hybrid fragmentation methods for glycoproteomics

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The application of ion-mobility mass spectrometry for structure/function investigation of protein complexes

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A Novel Differential Ion Mobility Device Expands the Depth of Proteome Coverage and the Sensitivity of Multiplex Proteomic Measurements

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Facile Disulfide Bond Cleavage in Gaseous Peptide and Protein Cations by Ultraviolet Photodissociation at 157 nm

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Contemporary hydrogen deuterium exchange mass spectrometry

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Structural Mass Spectrometry of Proteins Using Hydroxyl Radical Based Protein Footprinting

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Mass spectrometry guided structural biology

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Deep Top-Down Proteomics Using Capillary Zone Electrophoresis-Tandem Mass Spectrometry: Identification of 5700 Proteoforms from the <i>Escherichia coli</i> Proteome

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ProteomeTools: Systematic Characterization of 21 Post-translational Protein Modifications by Liquid Chromatography Tandem Mass Spectrometry (LC-MS/MS) Using Synthetic Peptides

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Ion Parking during Ion/Ion Reactions in Electrodynamic Ion Traps

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Covalent labeling-mass spectrometry with non-specific reagents for studying protein structure and interactions

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How Closely Related Are Conformations of Protein Ions Sampled by IM-MS to Native Solution Structures?

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Quantitation and Identification of Thousands of Human Proteoforms below 30 kDa

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Online Hydrophobic Interaction Chromatography–Mass Spectrometry for Top-Down Proteomics

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Direct Elucidation of Disulfide Bond Partners Using Ultraviolet Photodissociation Mass Spectrometry

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Phosphopeptide Fragmentation and Site Localization by Mass Spectrometry: An Update

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