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Title: oxSWATH: An integrative method for a comprehensive redox-centered analysis combined with a generic differential proteomics screening

Journal Article · · Redox Biology

Sponsoring Organization:
USDOE Office of Nuclear Energy (NE), Nuclear Fuel Cycle and Supply Chain
Grant/Contract Number:
PTDC/NEU-NMC/0205/2012; POCI-01-0145-FEDER-007440; UID/NEU/04539/2013; POCI-01-0145-FEDER-016428; SAICTPAC/0010/2015; POCI-01-0145-FEDER-016795; PTDC/NEU-SCC/7051/2014; POCI-01-0145-FEDER-029311; PTDC/BTM-TEC/29311/2017; POCI-01-0145-FEDER-30943; PTDC/MEC-PSQ/30943/2017; PTDC/MED-NEU/27946/2017; POCI-01-0145-FEDER-402-022125; ROTEIRO/0028/2013
OSTI ID:
1547801
Journal Information:
Redox Biology, Journal Name: Redox Biology Vol. 22 Journal Issue: C; ISSN 2213-2317
Publisher:
ElsevierCopyright Statement
Country of Publication:
Netherlands
Language:
English
Citation Metrics:
Cited by: 10 works
Citation information provided by
Web of Science

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Latest developments in sample treatment for 18O-isotopic labeling for proteomics mass spectrometry-based approaches: A critical review journal February 2010
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Sample sonication after trichloroacetic acid precipitation increases protein recovery from cultured hippocampal neurons, and improves resolution and reproducibility in two-dimensional gel electrophoresis journal May 2006
Comparative analysis of OFFGel, strong cation exchange with pH gradient, and RP at high pH for first-dimensional separation of peptides from a membrane-enriched protein fraction journal November 2009
Regulatory Control or Oxidative Damage? Proteomic Approaches to Interrogate the Role of Cysteine Oxidation Status in Biological Processes journal December 2011
Quantifying the global cellular thiol-disulfide status journal January 2009
cysTMTRAQ—An Integrative Method for Unbiased Thiol-based Redox Proteomics journal January 2015
Targeted Quantitation of Site-Specific Cysteine Oxidation in Endogenous Proteins Using a Differential Alkylation and Multiple Reaction Monitoring Mass Spectrometry Approach journal March 2010
The Use of Variable Q1 Isolation Windows Improves Selectivity in LC–SWATH–MS Acquisition journal September 2015
Thiol-disulfide proteins of stallion epididymal spermatozoa journal February 2014
Profiling Thiol Redox Proteome Using Isotope Tagging Mass Spectrometry journal January 2012
Cellular mechanisms and physiological consequences of redox-dependent signalling journal May 2014
Differential alkylation-based redox proteomics – Lessons learnt journal December 2015
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Cysteine-106 of DJ-1 is the most sensitive cysteine residue to hydrogen peroxide-mediated oxidation in vivo in human umbilical vein endothelial cells journal May 2004
Chasing Cysteine Oxidative Modifications: Proteomic Tools for Characterizing Cysteine Redox Status journal October 2012
Mapping the cysteine proteome: analysis of redox-sensing thiols journal February 2011
A Novel Strategy for Global Analysis of the Dynamic Thiol Redox Proteome journal September 2012
Protein precipitation of diluted samples in SDS-containing buffer with acetone leads to higher protein recovery and reproducibility in comparison with TCA/acetone approach journal May 2016
Redox-based regulation of signal transduction: Principles, pitfalls, and promises journal July 2008
2016 update of the PRIDE database and its related tools journal September 2016
Regulation of intracellular signalling through cysteine oxidation by reactive oxygen species journal January 2012
The Role of Cysteine Oxidation in DJ-1 Function and Dysfunction journal July 2011
DJ-1 protects the nigrostriatal axis from the neurotoxin MPTP by modulation of the AKT pathway journal January 2010
Oxidative Stress Induction of DJ-1 Protein in Reactive Astrocytes Scavenges Free Radicals and Reduces Cell Injury journal January 2009
Systematic and Quantitative Assessment of Hydrogen Peroxide Reactivity With Cysteines Across Human Proteomes journal October 2017
A reference library of peripheral blood mononuclear cells for SWATH-MS analysis journal June 2016
Viewing the proteome: How to visualize proteomics data? journal January 2015
The Reactome pathway knowledgebase journal November 2013
FunRich: An open access standalone functional enrichment and interaction network analysis tool journal June 2015
PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets journal January 2016
Oxidizable Residues Mediating Protein Stability and Cytoprotective Interaction of DJ-1 with Apoptosis Signal-regulating Kinase 1 journal May 2009
From Sulfenylation to Sulfhydration: What a Thiolate Needs to Tolerate journal March 2012
Determining cysteine oxidation status using differential alkylation journal August 2004
Quantitative Analysis of Redox-Sensitive Proteome with DIGE and ICAT journal August 2008

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