Large Scale Mass Spectrometry-based Identifications of Enzyme-mediated Protein Methylation Are Subject to High False Discovery Rates

Proteomic analysis of protein methylation in the yeast Saccharomyces cerevisiae

(2015) Keyun Wang et al.   Journal of Proteomics

Expanding the yeast protein arginine methylome

(2015) Michael Plank et al.   PROTEOMICS

Yeast proteins Gar1p, Nop1p, Npl3p, Nsr1p, and Rps2p are natively methylated and are substrates of the arginine methyltransferase Hmt1p

(2015) Daniel Yagoub et al.   PROTEOMICS

Comprehensive identification of arginine methylation in primary T cells reveals regulatory roles in cell signalling

(2015) Vincent Geoghegan et al.   Nature Communications

Stoichiometry of Saccharomyces cerevisiae Lysine Methylation: Insights into Non-histone Protein Lysine Methyltransferase Activity

(2014) Gene Hart-Smith et al.   JOURNAL OF PROTEOME RESEARCH

A Chemical Proteomics Approach for Global Analysis of Lysine Monomethylome Profiling

(2014) Zhixiang Wu et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteomic Analysis of Arginine Methylation Sites in Human Cells Reveals Dynamic Regulation During Transcriptional Arrest

(2014) Kathrine B. Sylvestersen et al.   MOLECULAR & CELLULAR PROTEOMICS

Mass-spectrometry-based draft of the human proteome

(2014) Mathias Wilhelm et al.   NATURE

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

(2014) Juan A Vizcaíno et al.   NATURE BIOTECHNOLOGY

Uncovering the Protein Lysine and Arginine Methylation Network in Arabidopsis Chloroplasts

(2014) Claude Alban et al.   PLoS One

The Saccharomyces cerevisiae poly(A)-binding protein is subject to multiple post-translational modifications, including the methylation of glutamic acid

(2013) Jason K.K. Low et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Large-scale global identification of protein lysine methylation in vivo

(2013) Xing-Jun Cao et al.   Epigenetics

Analysis of the Proteome of Saccharomyces cerevisiae for Methylarginine

(2013) Jason K.K. Low et al.   JOURNAL OF PROTEOME RESEARCH

Global proteomic analysis in trypanosomes reveals unique proteins and conserved cellular processes impacted by arginine methylation

(2013) Kaylen Lott et al.   Journal of Proteomics

Transferred Subgroup False Discovery Rate for Rare Post-translational Modifications Detected by Mass Spectrometry

(2013) Yan Fu et al.   MOLECULAR & CELLULAR PROTEOMICS

Interactions Affected by Arginine Methylation in the Yeast Protein–Protein Interaction Network

(2013) Melissa A. Erce et al.   MOLECULAR & CELLULAR PROTEOMICS

Immunoaffinity Enrichment and Mass Spectrometry Analysis of Protein Methylation

(2013) Ailan Guo et al.   MOLECULAR & CELLULAR PROTEOMICS

Mass spectrometry-based identification and characterisation of lysine and arginine methylation in the human proteome

(2013) Michael Bremang et al.   Molecular BioSystems

A large synthetic peptide and phosphopeptide reference library for mass spectrometry–based proteomics

(2013) Harald Marx et al.   NATURE BIOTECHNOLOGY

Proteome-wide enrichment of proteins modified by lysine methylation

(2013) Scott M Carlson et al.   Nature Protocols

Bayesian false discovery rates for post-translational modification proteomics

(2013) Yan Fu   Statistics and Its Interface

Protein arginine methylation inSaccharomyces cerevisiae

(2012) Jason K. K. Low et al.   FEBS Journal

Enhanced Methylarginine Characterization by Post-Translational Modification-Specific Targeted Data Acquisition and Electron-Transfer Dissociation Mass Spectrometry

(2012) Gene Hart-Smith et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

A Method for Large-scale Identification of Protein Arginine Methylation

(2012) Thomas Uhlmann et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteomic Analysis Reveals Diverse Classes of Arginine Methylproteins in Mitochondria of Trypanosomes

(2012) John C. Fisk et al.   MOLECULAR & CELLULAR PROTEOMICS

The methylproteome and the intracellular methylation network

(2012) Melissa A. Erce et al.   PROTEOMICS

Methylation of translation-associated proteins in Saccharomyces cerevisiae: Identification of methylated lysines and their methyltransferases

(2012) Timothy A. Couttas et al.   PROTEOMICS

Proteomic Analysis of Lysine Acetylation Sites in Rat Tissues Reveals Organ Specificity and Subcellular Patterns

(2012) Alicia Lundby et al.   Cell Reports

Detection and Characterization of Low Abundance Glycopeptides Via Higher-Energy C-Trap Dissociation and Orbitrap Mass Analysis

(2011) Gene Hart-Smith et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Proteome-wide post-translational modification statistics: frequency analysis and curation of the swiss-prot database

(2011) George A. Khoury et al.   Scientific Reports

AT_CHLORO, a Comprehensive Chloroplast Proteome Database with Subplastidial Localization and Curated Information on Envelope Proteins

(2010) Myriam Ferro et al.   MOLECULAR & CELLULAR PROTEOMICS

Isoforms of a cuticular protein from larvae of the meal beetle, Tenebrio molitor, studied by mass spectrometry in combination with Edman degradation and two-dimensional polyacrylamide gel electrophoresis

(2010) Sophie Haebel et al.   PROTEIN SCIENCE

Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis

(2010) J. V. Olsen et al.   Science Signaling

In vitro methylation by methanol: Proteomic screening and prevalence investigation

(2009) Guoqiang Chen et al.   ANALYTICA CHIMICA ACTA

Analysis of arginine and lysine methylation utilizing peptide separations at neutral pH and electron transfer dissociation mass spectrometry

(2009) Ambrosius P. L. Snijders et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Protein Arginine Methylation in Mammals: Who, What, and Why

(2009) Mark T. Bedford et al.   MOLECULAR CELL

Improved visualization of protein consensus sequences by iceLogo

(2009) Niklaas Colaert et al.   NATURE METHODS

Complications in the Assignment of 14 and 28 Da Mass Shift Detected by Mass Spectrometry as in Vivo Methylation from Endogenous Proteins

(2008) Sung Yun Jung et al.   ANALYTICAL CHEMISTRY

Identification of Two SET Domain Proteins Required for Methylation of Lysine Residues in Yeast Ribosomal Protein Rpl42ab

(2008) Kristofor J. Webb et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Identification and Validation of Eukaryotic Aspartate and Glutamate Methylation in Proteins

(2008) Robert Sprung et al.   JOURNAL OF PROTEOME RESEARCH

Identification of Four Novel Types ofin VitroProtein Modifications

(2008) Gang Xing et al.   JOURNAL OF PROTEOME RESEARCH

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY