Systematic Evaluation of Protein Reduction and Alkylation Reveals Massive Unspecific Side Effects by Iodine-containing Reagents

Large-Scale Analysis of Breast Cancer-Related Conformational Changes in Proteins Using Limited Proteolysis

(2016) Fang Liu et al.   JOURNAL OF PROTEOME RESEARCH

Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets

(2016) Johannes Griss et al.   NATURE METHODS

A mass-tolerant database search identifies a large proportion of unassigned spectra in shotgun proteomics as modified peptides

(2015) Joel M Chick et al.   NATURE BIOTECHNOLOGY

2016 update of the PRIDE database and its related tools

(2015) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Oxidation of Methionine Residues in Polypeptide Ions Via Gas-Phase Ion/Ion Chemistry

(2014) Alice L. Pilo et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Quantitative Assessment of In-solution Digestion Efficiency Identifies Optimal Protocols for Unbiased Protein Analysis

(2013) Ileana R. León et al.   MOLECULAR & CELLULAR PROTEOMICS

Identification of consistent alkylation of cysteine-less peptides in a proteomics experiment

(2012) Alisa G. Woods et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Characterization of reaction conditions providing rapid and specific cysteine alkylation for peptide-based mass spectrometry

(2012) Jana Paulech et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Disulfide proteomics for identification of extracellular or secreted proteins

(2012) Izabela Sokolowska et al.   ELECTROPHORESIS

Optimization of cell lysis and protein digestion protocols for the analysis of HeLa S3 cells by LC-MS/MS

(2011) Dominic Winter et al.   PROTEOMICS

Peptide fractionation in proteomics approaches

(2010) Bruno Manadas et al.   Expert Review of Proteomics

Combination of FASP and StageTip-Based Fractionation Allows In-Depth Analysis of the Hippocampal Membrane Proteome

(2009) Jacek R. Wiśniewski et al.   JOURNAL OF PROTEOME RESEARCH

Universal sample preparation method for proteome analysis

(2009) Jacek R Wiśniewski et al.   NATURE METHODS

Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics

(2009) Paul J Boersema et al.   Nature Protocols

Sequencing of the thirteen structurally isomeric quartets of N-terminal dipeptide motifs in peptides by collision-induced dissociation

(2009) Dominic Winter et al.   PROTEOMICS

Analytical strategies for phosphoproteomics

(2009) Tine E. Thingholm et al.   PROTEOMICS

Iodoacetamide-induced artifact mimics ubiquitination in mass spectrometry

(2008) Michael L Nielsen et al.   NATURE METHODS