Selected reaction monitoring–based proteomics: workflows, potential, pitfalls and future directions

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The Human Plasma Proteome

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Global analysis of protein expression in yeast

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Selected reaction monitoring for quantitative proteomics: a tutorial

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Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry

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Understanding, improving and using green fluorescent proteins

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Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins

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Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

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Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics

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Open Source System for Analyzing, Validating, and Storing Protein Identification Data

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Computational prediction of proteotypic peptides for quantitative proteomics

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Quantitative, Multiplexed Assays for Low Abundance Proteins in Plasma by Targeted Mass Spectrometry and Stable Isotope Dilution

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Options and considerations when selecting a quantitative proteomics strategy

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The fundamental flaws of immunoassays and potential solutions using tandem mass spectrometry

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Repeatability and Reproducibility in Proteomic Identifications by Liquid Chromatography−Tandem Mass Spectrometry

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

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Time-resolved Mass Spectrometry of Tyrosine Phosphorylation Sites in the Epidermal Growth Factor Receptor Signaling Network Reveals Dynamic Modules

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mProphet: automated data processing and statistical validation for large-scale SRM experiments

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Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma

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A novel strategy for quantitative proteomics using isotope‐coded protein labels

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Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks

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Multiplexed absolute quantification in proteomics using artificial QCAT proteins of concatenated signature peptides

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High-throughput generation of selected reaction-monitoring assays for proteins and proteomes

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Quantitative analysis of in vitro ubiquitinated cyclin B1 reveals complex chain topology

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Quantification of C‐reactive protein in the serum of patients with rheumatoid arthritis using multiple reaction monitoring mass spectrometry and 13C‐labeled peptide standards

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PHOSIDA 2011: the posttranslational modification database

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Scoring proteomes with proteotypic peptide probes

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High Sensitivity Detection of Plasma Proteins by Multiple Reaction Monitoring of N-Glycosites

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Selected ion fragmentation with a tandem quadrupole mass spectrometer

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A Quantitative Study of the Effects of Chaotropic Agents, Surfactants, and Solvents on the Digestion Efficiency of Human Plasma Proteins by Trypsin

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An Automated and Multiplexed Method for High Throughput Peptide Immunoaffinity Enrichment and Multiple Reaction Monitoring Mass Spectrometry-based Quantification of Protein Biomarkers

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Quantification of Thyroglobulin, a Low-Abundance Serum Protein, by Immunoaffinity Peptide Enrichment and Tandem Mass Spectrometry

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Prediction of high-responding peptides for targeted protein assays by mass spectrometry

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Quantification of Cardiovascular Biomarkers in Patient Plasma by Targeted Mass Spectrometry and Stable Isotope Dilution

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Building consensus spectral libraries for peptide identification in proteomics

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Zeptosens' protein microarrays: A novel high performance microarray platform for low abundance protein analysis

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Developing Multiplexed Assays for Troponin I and Interleukin-33 in Plasma by Peptide Immunoaffinity Enrichment and Targeted Mass Spectrometry

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Effect of Collision Energy Optimization on the Measurement of Peptides by Selected Reaction Monitoring (SRM) Mass Spectrometry

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A guide to the Proteomics Identifications Database proteomics data repository

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Selected reaction monitoring mass spectrometry reveals the dynamics of signaling through the GRB2 adaptor

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A database of mass spectrometric assays for the yeast proteome

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Multiple Reaction Monitoring to Identify Sites of Protein Phosphorylation with High Sensitivity

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PhosphoPep—a database of protein phosphorylation sites in model organisms

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Targeted Quantitative Analysis of Streptococcus pyogenes Virulence Factors by Multiple Reaction Monitoring

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Stable Isotope Labeling by Amino Acids in Cell Culture for Quantitative Proteomics

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Automated Detection of Inaccurate and Imprecise Transitions in Peptide Quantification by Multiple Reaction Monitoring Mass Spectrometry

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The Implications of Proteolytic Background for Shotgun Proteomics

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Cancer genetics-guided discovery of serum biomarker signatures for diagnosis and prognosis of prostate cancer

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A computational approach toward label-free protein quantification using predicted peptide detectability

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Increased Selectivity, Analytical Precision, and Throughput in Targeted Proteomics

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Clinical Quantitation of Prostate-specific Antigen Biomarker in the Low Nanogram/Milliliter Range by Conventional Bore Liquid Chromatography-Tandem Mass Spectrometry (Multiple Reaction Monitoring) Coupling and Correlation with ELISA Tests

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Perspectives of targeted mass spectrometry for protein biomarker verification

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Multiple Reaction Monitoring of mTRAQ-Labeled Peptides Enables Absolute Quantification of Endogenous Levels of a Potential Cancer Marker in Cancerous and Normal Endometrial Tissues

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Mutant proteins as cancer-specific biomarkers

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An integrated mass spectrometric and computational framework for the analysis of protein interaction networks

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Multiple reaction monitoring in mass spectrometry/mass spectrometry for direct analysis of complex mixtures

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Stable isotopic labeling in proteomics

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Expediting the Development of Targeted SRM Assays: Using Data from Shotgun Proteomics to Automate Method Development

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Protein Significance Analysis in Selected Reaction Monitoring (SRM) Measurements

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Multiple Reaction Monitoring Cubed for Protein Quantification at the Low Nanogram/Milliliter Level in Nondepleted Human Serum

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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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Protein Standard Absolute Quantification (PSAQ) for improved investigation of staphylococcal food poisoning outbreaks

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Preferentially Increased Nitration of α-Synuclein at Tyrosine-39 in a Cellular Oxidative Model of Parkinson’s Disease

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Use of an Immunoaffinity-Mass Spectrometry-based Approach for the Quantification of Protein Biomarkers from Serum Samples of Lung Cancer Patients

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Comprehensive quantitative analysis of central carbon and amino‐acid metabolism in Saccharomyces cerevisiae under multiple conditions by targeted proteomics

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Global absolute quantification of a proteome: Challenges in the deployment of a QconCAT strategy

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Methods for Peptide and Protein Quantitation by Liquid Chromatography-Multiple Reaction Monitoring Mass Spectrometry

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Targeted proteomics using selected reaction monitoring reveals the induction of specific terpene synthases in a multi‐level study of methyl jasmonate‐treated Norway spruce (Picea abies)

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Progress in miniaturization of protein arrays—a step closer to high-density nanoarrays

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Strategic Use of Immunoprecipitation and LC/MS/MS for Trace-Level Protein Quantification: Myosin Light Chain 1, a Biomarker of Cardiac Necrosis

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MRMaid, the Web-based Tool for Designing Multiple Reaction Monitoring (MRM) Transitions

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Multiple reaction monitoring as a method for identifying protein posttranslational modifications.

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Comparative Evaluation of Current Peptide Production Platforms Used in Absolute Quantification in Proteomics

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Differential Multisite Phosphorylation of the Trehalose-6-phosphate Synthase Gene Family in Arabidopsis thaliana

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