Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation

The increasing complexity of the ubiquitin code

(2016) Richard Yau et al.   NATURE CELL BIOLOGY

The Perseus computational platform for comprehensive analysis of (prote)omics data

(2016) Stefka Tyanova et al.   NATURE METHODS

A high-yield double-purification proteomics strategy for the identification of SUMO sites

(2016) Ivo A Hendriks et al.   Nature Protocols

A comprehensive compilation of SUMO proteomics

(2016) Ivo A. Hendriks et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells

(2016) Sara C. Larsen et al.   Science Signaling

Proteome-wide identification of the endogenous ADP-ribosylome of mammalian cells and tissue

(2016) Rita Martello et al.   Nature Communications

Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells

(2016) Sara C. Larsen et al.   Science Signaling

Spatiotemporal regulation of posttranslational modifications in the DNA damage response

(2015) N. P. Dantuma et al.   EMBO JOURNAL

Mapping the SUMOylated landscape

(2015) Karolin Eifler et al.   FEBS Journal

System-wide Analysis of SUMOylation Dynamics in Response to Replication Stress Reveals Novel Small Ubiquitin-like Modified Target Proteins and Acceptor Lysines Relevant for Genome Stability

(2015) Zhenyu Xiao et al.   MOLECULAR & CELLULAR PROTEOMICS

SUMOylation-Mediated Regulation of Cell Cycle Progression and Cancer

(2015) Karolin Eifler et al.   TRENDS IN BIOCHEMICAL SCIENCES

Sumo and the cellular stress response

(2015) Jorrit M. Enserink   Cell Division

System-wide identification of wild-type SUMO-2 conjugation sites

(2015) Ivo A. Hendriks et al.   Nature Communications

SUMO-2 Orchestrates Chromatin Modifiers in Response to DNA Damage

(2015) Ivo A. Hendriks et al.   Cell Reports

SSpro/ACCpro 5: almost perfect prediction of protein secondary structure and relative solvent accessibility using profiles, machine learning and structural similarity

(2014) C. N. Magnan et al.   BIOINFORMATICS

Predicting sumoylation sites using support vector machines based on various sequence features, conformational flexibility and disorder

(2014) Ahmet Yavuz et al.   BMC GENOMICS

SUMO2 is essential while SUMO3 is dispensable for mouse embryonic development

(2014) L. Wang et al.   EMBO REPORTS

Off-Line High-pH Reversed-Phase Fractionation for In-Depth Phosphoproteomics

(2014) Tanveer S. Batth et al.   JOURNAL OF PROTEOME RESEARCH

Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ

(2014) Jürgen Cox et al.   MOLECULAR & CELLULAR PROTEOMICS

Uncovering SUMOylation Dynamics during Cell-Cycle Progression Reveals FoxM1 as a Key Mitotic SUMO Target Protein

(2014) Joost Schimmel et al.   MOLECULAR CELL

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

(2014) Juan A Vizcaíno et al.   NATURE BIOTECHNOLOGY

KinomeXplorer: an integrated platform for kinome biology studies

(2014) Heiko Horn et al.   NATURE METHODS

Uncovering global SUMOylation signaling networks in a site-specific manner

(2014) Ivo A Hendriks et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

Mapping of SUMO sites and analysis of SUMOylation changes induced by external stimuli

(2014) F. Impens et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Proteome-Wide Identification of SUMO2 Modification Sites

(2014) T. Tammsalu et al.   Science Signaling

Large-scale analysis of lysine SUMOylation by SUMO remnant immunoaffinity profiling

(2014) Frédéric Lamoliatte et al.   Nature Communications

PolyUbiquitin Chain Linkage Topology Selects the Functions from the Underlying Binding Landscape

(2014) Yong Wang et al.   PLoS Computational Biology

PML nuclear bodies: Assembly and oxidative stress-sensitive sumoylation

(2014) Umut Sahin et al.   Nucleus

Sumoylation: A Regulatory Protein Modification in Health and Disease

(2013) Annette Flotho et al.   Annual Review of Biochemistry

When ubiquitination meets phosphorylation: a systems biology perspective of EGFR/MAPK signalling

(2013) Lan K Nguyen et al.   Cell Communication and Signaling

The Coming Age of Complete, Accurate, and Ubiquitous Proteomes

(2013) Matthias Mann et al.   MOLECULAR CELL

Detecting endogenous SUMO targets in mammalian cells and tissues

(2013) Janina Becker et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phosphorylation Variation during the Cell Cycle Scales with Structural Propensities of Proteins

(2013) Stefka Tyanova et al.   PLoS Computational Biology

Protein Group Modification and Synergy in the SUMO Pathway as Exemplified in DNA Repair

(2012) Ivan Psakhye et al.   CELL

Identification of Estrogen Receptor   as a SUMO-1 Target Reveals a Novel Phosphorylated Sumoylation Motif and Regulation by Glycogen Synthase Kinase 3 

(2012) N. Picard et al.   MOLECULAR AND CELLULAR BIOLOGY

Ubiquitin chain conformation regulates recognition and activity of interacting proteins

(2012) Yu Ye et al.   NATURE

Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues

(2012) Alicia Lundby et al.   Nature Communications

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

(2011) Jürgen Cox et al.   JOURNAL OF PROTEOME RESEARCH

Systematic and Quantitative Assessment of the Ubiquitin-Modified Proteome

(2011) Woong Kim et al.   MOLECULAR CELL

Deep proteome and transcriptome mapping of a human cancer cell line

(2011) N. Nagaraj et al.   Molecular Systems Biology

SUMO chains: polymeric signals: Figure 1

(2010) Alfred C.O. Vertegaal   BIOCHEMICAL SOCIETY TRANSACTIONS

Precision Mapping of an In Vivo N-Glycoproteome Reveals Rigid Topological and Sequence Constraints

(2010) Dorota F. Zielinska et al.   CELL

Mass Spectrometric Analysis of Lysine Ubiquitylation Reveals Promiscuity at Site Level

(2010) Jannie M. R. Danielsen et al.   MOLECULAR & CELLULAR PROTEOMICS

Site-Specific Identification of SUMO-2 Targets in Cells Reveals an Inverted SUMOylation Motif and a Hydrophobic Cluster SUMOylation Motif

(2010) Ivan Matic et al.   MOLECULAR CELL

Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis

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

Improved visualization of protein consensus sequences by iceLogo

(2009) Niklaas Colaert et al.   NATURE METHODS

Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions

(2009) C. Choudhary et al.   SCIENCE

System-Wide Changes to SUMO Modifications in Response to Heat Shock

(2009) F. Golebiowski et al.   Science Signaling

Regulation of Cyclin D1 RNA Stability by SNIP1

(2008) C. P. Bracken et al.   CANCER RESEARCH

The Fast-Growing Business of SUMO Chains

(2008) Helle D. Ulrich   MOLECULAR CELL

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

RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation

(2008) Michael H. Tatham et al.   NATURE CELL BIOLOGY

Arsenic degrades PML or PML–RARα through a SUMO-triggered RNF4/ubiquitin-mediated pathway

(2008) Valérie Lallemand-Breitenbach et al.   NATURE CELL BIOLOGY