Matthew J. Gaffrey

Publications

• Stoichiometric Thiol Redox Proteomics for Quantifying Cellular Responses to Perturbations
  Antioxidants (Basel, Switzerland). Mar, 2021  |   Pubmed ID: 33807006
• Enhancement of Polyhydroxyalkanoate Production by Co-feeding Lignin Derivatives with Glycerol in Pseudomonas Putida KT2440
  Biotechnology for Biofuels. Jan, 2021  |   Pubmed ID: 33413621
• Characterization of Cellular Oxidative Stress Response by Stoichiometric Redox Proteomics
  American Journal of Physiology. Cell Physiology. 02, 2021  |   Pubmed ID: 33264075
• Protein Thiol Oxidation in the Rat Lung Following E-cigarette Exposure
  Redox Biology. Oct, 2020  |   Pubmed ID: 33080441
• Stochiometric Quantification of the Thiol Redox Proteome of Macrophages Reveals Subcellular Compartmentalization and Susceptibility to Oxidative Perturbations
  Redox Biology. Sep, 2020  |   Pubmed ID: 32750668
• Automated Coupling of Nanodroplet Sample Preparation with Liquid Chromatography-Mass Spectrometry for High-Throughput Single-Cell Proteomics
  Analytical Chemistry. 08, 2020  |   Pubmed ID: 32639140
• Block Design with Common Reference Samples Enables Robust Large-Scale Label-Free Quantitative Proteome Profiling
  Journal of Proteome Research. 07, 2020  |   Pubmed ID: 32407631
• Accurate Identification of Deamidation and Citrullination from Global Shotgun Proteomics Data Using a Dual-Search Delta Score Strategy
  Journal of Proteome Research. 04, 2020  |   Pubmed ID: 32175737
• Evaluation of the Cytotoxic and Cellular Proteome Impacts of Food-grade TiO (E171) Using Simulated Gastrointestinal Digestions and a Tri-culture Small Intestinal Epithelial Model
  NanoImpact. Jan, 2020  |   Pubmed ID: 32133427
• A Proteome-wide Assessment of the Oxidative Stress Paradigm for Metal and Metal-oxide Nanomaterials in Human Macrophages
  NanoImpact. Jan, 2020  |   Pubmed ID: 32133426
• Comprehensive Detection of Single Amino Acid Variants and Evaluation of Their Deleterious Potential in a PANC-1 Cell Line
  Journal of Proteome Research. 04, 2020  |   Pubmed ID: 32058723
• Rosette Core Fungal Resistance in Arabidopsis Thaliana
  Planta. Dec, 2019  |   Pubmed ID: 31529398
• Discovery of Potential Pathways for Biological Conversion of Poplar Wood into Lipids by Co-fermentation of Strains
  Biotechnology for Biofuels. 2019  |   Pubmed ID: 30923568
• Improving Mitochondrial Function with SS-31 Reverses Age-related Redox Stress and Improves Exercise Tolerance in Aged Mice
  Free Radical Biology & Medicine. 04, 2019  |   Pubmed ID: 30597195
• Carrier-Assisted Single-Tube Processing Approach for Targeted Proteomics Analysis of Low Numbers of Mammalian Cells
  Analytical Chemistry. 01, 2019  |   Pubmed ID: 30557009
• Reference Genes for Accurate Normalization of Gene Expression in Wood-decomposing Fungi
  Fungal Genetics and Biology : FG & B. 02, 2019  |   Pubmed ID: 30529285
• All That is Silver is Not Toxic: Silver Ion and Particle Kinetics Reveals the Role of Silver Ion Aging and Dosimetry on the Toxicity of Silver Nanoparticles
  Particle and Fibre Toxicology. 12, 2018  |   Pubmed ID: 30518385
• Facile Carrier-assisted Targeted Mass Spectrometric Approach for Proteomic Analysis of Low Numbers of Mammalian Cells
  Communications Biology. 2018  |   Pubmed ID: 30271983
• Mass Spectrometry-based Proteomics for System-level Characterization of Biological Responses to Engineered Nanomaterials
  Analytical and Bioanalytical Chemistry. Sep, 2018  |   Pubmed ID: 29947897
• Fatiguing Contractions Increase Protein S-glutathionylation Occupancy in Mouse Skeletal Muscle
  Redox Biology. 07, 2018  |   Pubmed ID: 29857311
• Fluctuation Localization Imaging-based Fluorescence in Situ Hybridization (fliFISH) for Accurate Detection and Counting of RNA Copies in Single Cells
  Nucleic Acids Research. 01, 2018  |   Pubmed ID: 29040675
• Quantitative Proteomic Characterization of Redox-dependent Post-translational Modifications on Protein Cysteines
  Molecular BioSystems. May, 2017  |   Pubmed ID: 28357434
• Cells Respond to Distinct Nanoparticle Properties with Multiple Strategies As Revealed by Single-Cell RNA-Seq
  ACS Nano. Nov, 2016  |   Pubmed ID: 27788331
• Quantitative Profiling of Protein S-Glutathionylation Reveals Redox-Dependent Regulation of Macrophage Function During Nanoparticle-Induced Oxidative Stress
  ACS Nano. Jan, 2016  |   Pubmed ID: 26700264
• Sensitive Targeted Quantification of ERK Phosphorylation Dynamics and Stoichiometry in Human Cells Without Affinity Enrichment
  Analytical Chemistry. Jan, 2015  |   Pubmed ID: 25517423
• Proteome-wide Light/dark Modulation of Thiol Oxidation in Cyanobacteria Revealed by Quantitative Site-specific Redox Proteomics
  Molecular & Cellular Proteomics : MCP. Dec, 2014  |   Pubmed ID: 25118246
• Resin-assisted Enrichment of Thiols As a General Strategy for Proteomic Profiling of Cysteine-based Reversible Modifications
  Nature Protocols. Jan, 2014  |   Pubmed ID: 24336471
• Proteomic Identification and Quantification of S-glutathionylation in Mouse Macrophages Using Resin-assisted Enrichment and Isobaric Labeling
  Free Radical Biology & Medicine. Feb, 2014  |   Pubmed ID: 24333276
• Late-life Restoration of Mitochondrial Function Reverses Cardiac Dysfunction in Old Mice
  ELife.   |   Pubmed ID: 32648542