Mass Spectrometry-Based Methods for Identifying Oxidized Proteins in Disease: Advances and Challenges

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

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Free Radicals in the Physiological Control of Cell Function

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An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database

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Oxidative stress, inflammation, and cancer: How are they linked?

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Oxyl radicals, redox-sensitive signalling cascades and antioxidants

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The Human Plasma Proteome

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CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

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TANDEM: matching proteins with tandem mass spectra

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Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS

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Open Mass Spectrometry Search Algorithm

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PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry

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The Paragon Algorithm, a Next Generation Search Engine That Uses Sequence Temperature Values and Feature Probabilities to Identify Peptides from Tandem Mass Spectra

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The abc's (and xyz's) of peptide sequencing

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Protein carbonylation, cellular dysfunction, and disease progression

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The Biotin Switch Method for the Detection of S -Nitrosylated Proteins

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QUANTIFICATION AND SIGNIFICANCE OF PROTEIN OXIDATION IN BIOLOGICAL SAMPLES*

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Mutually exclusive redox forms of HMGB1 promote cell recruitment or proinflammatory cytokine release

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OpenMS – An open-source software framework for mass spectrometry

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Cardioprotection by S-nitrosation of a cysteine switch on mitochondrial complex I

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Options and considerations when selecting a quantitative proteomics strategy

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Investigation of intact protein complexes by mass spectrometry

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Oxidative Modifications and Down-regulation of Ubiquitin Carboxyl-terminal Hydrolase L1 Associated with Idiopathic Parkinson's and Alzheimer's Diseases

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PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows

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Redox signaling: thiol chemistry defines which reactive oxygen and nitrogen species can act as second messengers.

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Proteomic identification of nitrated proteins in Alzheimer's disease brain

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Oxidative Damage of DJ-1 Is Linked to Sporadic Parkinson and Alzheimer Diseases

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MS Amanda, a Universal Identification Algorithm Optimized for High Accuracy Tandem Mass Spectra

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Value of Using Multiple Proteases for Large-Scale Mass Spectrometry-Based Proteomics

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Cysteine/cystine redox signaling in cardiovascular disease

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Identifying specific protein interaction partners using quantitative mass spectrometry and bead proteomes

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Weighing Naked Proteins: Practical, High-Accuracy Mass Measurement of Peptides and Proteins

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Methionine oxidation by reactive oxygen species: reaction mechanisms and relevance to Alzheimer's disease

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Protein Tyrosine Nitration: Selectivity, Physicochemical and Biological Consequences, Denitration, and Proteomics Methods for the Identification of Tyrosine-Nitrated Proteins

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Oxidative damage to macromolecules in human Parkinson disease and the rotenone model

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SuperHirn – a novel tool for high resolution LC‐MS‐based peptide/protein profiling

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An overview of mechanisms of redox signaling

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Oxidative Modifications and Aggregation of Cu,Zn-Superoxide Dismutase Associated with Alzheimer and Parkinson Diseases

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Human Atherosclerotic Intima and Blood of Patients with Established Coronary Artery Disease Contain High Density Lipoprotein Damaged by Reactive Nitrogen Species

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Protein glycation, oxidation and nitration adduct residues and free adducts of cerebrospinal fluid in Alzheimer's disease and link to cognitive impairment

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Tools for Label-free Peptide Quantification

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Neutrophil extracellular trap-derived enzymes oxidize high-density lipoprotein: an additional proatherogenic mechanism in systemic lupus erythematosus

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Nitrated and oxidized plasma proteins in smokers and lung cancer patients.

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CE‐MS analysis of the human urinary proteome for biomarker discovery and disease diagnostics

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Lessons in de novo peptide sequencing by tandem mass spectrometry

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Gel-Eluted Liquid Fraction Entrapment Electrophoresis:  An Electrophoretic Method for Broad Molecular Weight Range Proteome Separation

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Salivary analysis in oral cancer patients

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Identification of oxidized plasma proteins in Alzheimer's disease

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Isotope-Coded Affinity Tag (ICAT) Approach to Redox Proteomics: Identification and Quantitation of Oxidant-Sensitive Cysteine Thiols in Complex Protein Mixtures

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Multiple Enzymatic Digestion for Enhanced Sequence Coverage of Proteins in Complex Proteomic Mixtures Using Capillary LC with Ion Trap MS/MS

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A Model of Redox Kinetics Implicates the Thiol Proteome in Cellular Hydrogen Peroxide Responses

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Chemical ‘omics’ approaches for understanding protein cysteine oxidation in biology

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Myeloperoxidase Targets Apolipoprotein A-I, the Major High Density Lipoprotein Protein, for Site-Specific Oxidation in Human Atherosclerotic Lesions

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Methionine oxidation, α-synuclein and Parkinson's disease

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Lipoxidation adducts with peptides and proteins: Deleterious modifications or signaling mechanisms?

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Oxidation of Myofibrillar Proteins in Human Heart Failure

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Top-down proteomics reveals a unique protein S-thiolation switch in <i>Salmonella</i> Typhimurium in response to infection-like conditions

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Redox Albuminomics: Oxidized Albumin in Human Diseases

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Detection of protein carbonyls in aging liver tissue: A fluorescence-based proteomic approach

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Quantitative screening of protein biomarkers of early glycation, advanced glycation, oxidation and nitrosation in cellular and extracellular proteins by tandem mass spectrometry multiple reaction monitoring

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Endogenously Nitrated Proteins in Mouse Brain: Links to Neurodegenerative Disease

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Mass measurement and top-down HPLC/MS analysis of intact monoclonal antibodies on a hybrid linear quadrupole ion trap-orbitrap mass spectrometer

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Resin-assisted enrichment of thiols as a general strategy for proteomic profiling of cysteine-based reversible modifications

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Comprehensive Analysis of Protein Modifications by Top-Down Mass Spectrometry

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Protein Expression Regulation under Oxidative Stress

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Investigation of tyrosine nitration in proteins by mass spectrometry

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Post-translational Modifications and Mass Spectrometry Detection

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Validation of protein carbonyl measurement: A multi-centre study

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Targeted Quantitation of Site-Specific Cysteine Oxidation in Endogenous Proteins Using a Differential Alkylation and Multiple Reaction Monitoring Mass Spectrometry Approach

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Proteomic Quantification and Site-Mapping of S -Nitrosylated Proteins Using Isobaric iodoTMT Reagents

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Proteomics as a Method for Early Detection of Cancer: A Review of Proteomics, Exhaled Breath Condensate, and Lung Cancer Screening

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Detection of oxidized and glycated proteins in clinical samples using mass spectrometry — A user's perspective

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A primer on peroxiredoxin biochemistry

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Discovery of Candidate Serum Proteomic and Metabolomic Biomarkers in Ankylosing Spondylitis

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Novel molecular tumour classification using MALDI–mass spectrometry imaging of tissue micro-array

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Exploring oxidative modifications of tyrosine: An update on mechanisms of formation, advances in analysis and biological consequences

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A Straightforward and Highly Efficient Precipitation/On-Pellet Digestion Procedure Coupled with a Long Gradient Nano-LC Separation and Orbitrap Mass Spectrometry for Label-Free Expression Profiling of the Swine Heart Mitochondrial Proteome

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Redox proteomic analysis of carbonylated brain proteins in mild cognitive impairment and early Alzheimer’s disease

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Nitroproteins from a human pituitary adenoma tissue discovered with a nitrotyrosine affinity column and tandem mass spectrometry

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Mass‐spectrometry based oxidative lipidomics and lipid imaging: applications in traumatic brain injury

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Quantitative mapping of oxidation-sensitive cysteine residues in SERCA in vivo and in vitro by HPLC–electrospray-tandem MS: selective protein oxidation during biological aging

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Proteomics of inflammatory and oxidative stress response in cows with subclinical and clinical mastitis

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Detection and characterization of methionine oxidation in peptides by collision-induced dissociation and electron capture dissociation

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Protein carbonylation: avoiding pitfalls in the 2,4-dinitrophenylhydrazine assay

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Proteomic profiling of human liver biopsies: hepatitis C virus-induced fibrosis and mitochondrial dysfunction

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Chemical and cytokine features of innate immunity characterize serum and tissue profiles in inflammatory bowel disease

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High-Throughput Proteomic-Based Identification of Oxidatively Induced Protein Carbonylation in Mouse Brain

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Measurement and meaning of markers of reactive species of oxygen, nitrogen and sulfur in healthy human subjects and patients with inflammatory joint disease

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Mass Spectrometric Strategies and Their Applications for Molecular Mass Determination of Recombinant Therapeutic Proteins

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