Multiplexed peptide analysis using data-independent acquisition and Skyline

Comparison of Data Acquisition Strategies on Quadrupole Ion Trap Instrumentation for Shotgun Proteomics

(2014) Jesse D. Canterbury et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Implementation of Statistical Process Control for Proteomic Experiments Via LC MS/MS

(2014) Michael S. Bereman et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

MixGF: Spectral Probabilities for Mixture Spectra from more than One Peptide

(2014) Jian Wang et al.   MOLECULAR & CELLULAR PROTEOMICS

OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data

(2014) Hannes L Röst et al.   NATURE BIOTECHNOLOGY

Tools for monitoring system suitability in LC MS/MS centric proteomic experiments

(2014) Michael S. Bereman   PROTEOMICS

Advances in multiplexed MRM-based protein biomarker quantitation toward clinical utility

(2013) Andrew J. Percy et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

The Mtb Proteome Library: A Resource of Assays to Quantify the Complete Proteome of Mycobacterium tuberculosis

(2013) Olga T. Schubert et al.   Cell Host & Microbe

Recent advances in mass spectrometry: data independent analysis and hyper reaction monitoring

(2013) Kai Pong Law et al.   Expert Review of Proteomics

Factorial Experimental Designs Elucidate Significant Variables Affecting Data Acquisition on a Quadrupole Orbitrap Mass Spectrometer

(2013) Shan M. Randall et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Multiplexed MS/MS for improved data-independent acquisition

(2013) Jarrett D Egertson et al.   NATURE METHODS

Mass Spectrometry–Based Proteomics and Network Biology

(2012) Ariel Bensimon et al.   Annual Review of Biochemistry

Statistical protein quantification and significance analysis in label-free LC-MS experiments with complex designs

(2012) Timothy Clough et al.   BMC BIOINFORMATICS

Accurate Peptide Fragment Mass Analysis: Multiplexed Peptide Identification and Quantification

(2012) Chad R. Weisbrod et al.   JOURNAL OF PROTEOME RESEARCH

Selectivity of LC-MS/MS analysis: Implication for proteomics experiments

(2012) Sebastien Gallien et al.   Journal of Proteomics

Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis

(2012) Ludovic C. Gillet et al.   MOLECULAR & CELLULAR PROTEOMICS

Fourier Transform Mass Spectrometry

(2011) Michaela Scigelova et al.   MOLECULAR & CELLULAR PROTEOMICS

Rapid empirical discovery of optimal peptides for targeted proteomics

(2011) Andrew B Stergachis et al.   NATURE METHODS

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

(2010) Brendan MacLean et al.   ANALYTICAL CHEMISTRY

Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

(2010) Brendan MacLean et al.   BIOINFORMATICS

Deconvolution of Mixture Spectra from Ion-Trap Data-Independent-Acquisition Tandem Mass Spectrometry

(2009) Marshall Bern et al.   ANALYTICAL CHEMISTRY

Proteomics by Mass Spectrometry: Approaches, Advances, and Applications

(2009) John R. Yates et al.   Annual Review of Biomedical Engineering

Optimized orbitrap HCD for quantitative analysis of phosphopeptides

(2009) Yi Zhang et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

The detection, correlation, and comparison of peptide precursor and product ions from data independent LC-MS with data dependant LC-MS/MS

(2009) Scott J. Geromanos et al.   PROTEOMICS

Orbitrap mass spectrometry: Instrumentation, ion motion and applications

(2008) Richard H. Perry et al.   MASS SPECTROMETRY REVIEWS

Selected reaction monitoring for quantitative proteomics: a tutorial

(2008) Vinzenz Lange et al.   Molecular Systems Biology