Published in J Biol Chem on June 02, 2004
Weighing in on ubiquitin: the expanding role of mass-spectrometry-based proteomics. Nat Cell Biol (2005) 2.62
In vivo identification of human small ubiquitin-like modifier polymerization sites by high accuracy mass spectrometry and an in vitro to in vivo strategy. Mol Cell Proteomics (2007) 2.30
A universal strategy for proteomic studies of SUMO and other ubiquitin-like modifiers. Mol Cell Proteomics (2004) 2.21
SUMO protease SENP1 induces isomerization of the scissile peptide bond. Nat Struct Mol Biol (2006) 1.89
An extended consensus motif enhances the specificity of substrate modification by SUMO. EMBO J (2006) 1.86
Genetic analysis of SUMOylation in Arabidopsis: conjugation of SUMO1 and SUMO2 to nuclear proteins is essential. Plant Physiol (2007) 1.79
Uncovering global SUMOylation signaling networks in a site-specific manner. Nat Struct Mol Biol (2014) 1.74
NUCLEAR PORE ANCHOR, the Arabidopsis homolog of Tpr/Mlp1/Mlp2/megator, is involved in mRNA export and SUMO homeostasis and affects diverse aspects of plant development. Plant Cell (2007) 1.73
Detection of protein SUMOylation in vivo. Nat Protoc (2009) 1.66
The structure of SENP1-SUMO-2 complex suggests a structural basis for discrimination between SUMO paralogues during processing. Biochem J (2006) 1.49
Genetic and proteomic evidence for roles of Drosophila SUMO in cell cycle control, Ras signaling, and early pattern formation. PLoS One (2009) 1.48
Hypoxia-associated factor, a novel E3-ubiquitin ligase, binds and ubiquitinates hypoxia-inducible factor 1alpha, leading to its oxygen-independent degradation. Mol Cell Biol (2008) 1.46
Sumoylation in axons triggers retrograde transport of the RNA-binding protein La. Proc Natl Acad Sci U S A (2007) 1.45
Detecting endogenous SUMO targets in mammalian cells and tissues. Nat Struct Mol Biol (2013) 1.44
Proteome-wide screens for small ubiquitin-like modifier (SUMO) substrates identify Arabidopsis proteins implicated in diverse biological processes. Proc Natl Acad Sci U S A (2010) 1.40
Dissecting the ubiquitin pathway by mass spectrometry. Biochim Biophys Acta (2006) 1.32
SUMO2/3 conjugation is an endogenous neuroprotective mechanism. J Cereb Blood Flow Metab (2011) 1.32
Novel proteomics strategy brings insight into the prevalence of SUMO-2 target sites. Mol Cell Proteomics (2009) 1.26
Multiplex SILAC analysis of a cellular TDP-43 proteinopathy model reveals protein inclusions associated with SUMOylation and diverse polyubiquitin chains. Mol Cell Proteomics (2010) 1.16
Improved identification of SUMO attachment sites using C-terminal SUMO mutants and tailored protease digestion strategies. J Proteome Res (2006) 1.14
RNF4 and VHL regulate the proteasomal degradation of SUMO-conjugated Hypoxia-Inducible Factor-2alpha. Nucleic Acids Res (2009) 1.12
Post-translational modification and regulation of actin. Curr Opin Cell Biol (2012) 1.10
SUMOylation of nuclear actin. J Cell Biol (2009) 1.08
Uncovering ubiquitin and ubiquitin-like signaling networks. Chem Rev (2011) 1.06
Hypoxia inducible factor-1: its potential role in cerebral ischemia. Cell Mol Neurobiol (2012) 1.05
Neuronal SUMOylation: mechanisms, physiology, and roles in neuronal dysfunction. Physiol Rev (2014) 1.02
Ubiquitin proteolytic system: focus on SUMO. Expert Rev Proteomics (2008) 1.02
Quantifying ubiquitin signaling. Mol Cell (2015) 1.02
Hrp59, an hnRNP M protein in Chironomus and Drosophila, binds to exonic splicing enhancers and is required for expression of a subset of mRNAs. J Cell Biol (2005) 0.98
Analysis of oxygen/glucose-deprivation-induced changes in SUMO3 conjugation using SILAC-based quantitative proteomics. J Proteome Res (2011) 0.98
A proteomic screen for nucleolar SUMO targets shows SUMOylation modulates the function of Nop5/Nop58. Mol Cell (2010) 0.97
The serine/arginine-rich protein SF2/ASF regulates protein sumoylation. Proc Natl Acad Sci U S A (2010) 0.95
UBE2I (UBC9), a SUMO-conjugating enzyme, localizes to nuclear speckles and stimulates transcription in mouse oocytes. Biol Reprod (2008) 0.93
Identification of a new site of sumoylation on Tel (ETV6) uncovers a PIAS-dependent mode of regulating Tel function. Mol Cell Biol (2008) 0.93
Ubc9 fusion-directed SUMOylation identifies constitutive and inducible SUMOylation. Nucleic Acids Res (2007) 0.92
SUMOylation pathway in Trypanosoma cruzi: functional characterization and proteomic analysis of target proteins. Mol Cell Proteomics (2011) 0.92
A global S. cerevisiae small ubiquitin-related modifier (SUMO) system interactome. Mol Syst Biol (2013) 0.90
Sumoylation precedes accumulation of phosphorylated H2AX on sex chromosomes during their meiotic inactivation. Chromosome Res (2009) 0.90
Distinct functional domains of Ubc9 dictate cell survival and resistance to genotoxic stress. Mol Cell Biol (2006) 0.90
Modulation of Abeta generation by small ubiquitin-like modifiers does not require conjugation to target proteins. Biochem J (2007) 0.90
HAF : the new player in oxygen-independent HIF-1alpha degradation. Cell Cycle (2009) 0.90
Talking to chromatin: post-translational modulation of polycomb group function. Epigenetics Chromatin (2009) 0.90
Global SUMO Proteome Responses Guide Gene Regulation, mRNA Biogenesis, and Plant Stress Responses. Front Plant Sci (2012) 0.89
The SUMO system: a master organizer of nuclear protein assemblies. Chromosoma (2013) 0.88
Defining an Embedded Code for Protein Ubiquitination. J Proteomics Bioinform (2009) 0.88
Identification and characterization of proteins that selectively interact with the LHR mRNA binding protein (LRBP) in rat ovaries. Biochim Biophys Acta (2010) 0.86
SUMOylation affects the interferon blocking activity of the influenza A nonstructural protein NS1 without affecting its stability or cellular localization. J Virol (2013) 0.85
An improved SUMmOn-based methodology for the identification of ubiquitin and ubiquitin-like protein conjugation sites identifies novel ubiquitin-like protein chain linkages. Proteomics (2010) 0.85
Emerging roles of sumoylation in the regulation of actin, microtubules, intermediate filaments, and septins. Cytoskeleton (Hoboken) (2015) 0.83
Hypoxia-induced SUMOylation of E3 ligase HAF determines specific activation of HIF2 in clear-cell renal cell carcinoma. Cancer Res (2014) 0.83
Strategies to Identify Recognition Signals and Targets of SUMOylation. Biochem Res Int (2012) 0.83
High-stringency tandem affinity purification of proteins conjugated to ubiquitin-like moieties. Nat Protoc (2010) 0.83
Calpain 3 is a rapid-action, unidirectional proteolytic switch central to muscle remodeling. PLoS One (2010) 0.83
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. Mol Cell Proteomics (2015) 0.83
A systems biology approach identifies SART1 as a novel determinant of both 5-fluorouracil and SN38 drug resistance in colorectal cancer. Mol Cancer Ther (2011) 0.82
Ubiquitin-specific Protease 11 (USP11) Deubiquitinates Hybrid Small Ubiquitin-like Modifier (SUMO)-Ubiquitin Chains to Counteract RING Finger Protein 4 (RNF4). J Biol Chem (2015) 0.82
Comprehensive Protein Interactome Analysis of a Key RNA Helicase: Detection of Novel Stress Granule Proteins. Biomolecules (2015) 0.82
Trafficking of the transcription factor Nrf2 to promyelocytic leukemia-nuclear bodies: implications for degradation of NRF2 in the nucleus. J Biol Chem (2013) 0.81
Multiple crosstalks between mRNA biogenesis and SUMO. Chromosoma (2013) 0.81
NUA Activities at the Plant Nuclear Pore. Plant Signal Behav (2007) 0.80
The S. pombe translation initiation factor eIF4G is Sumoylated and associates with the SUMO protease Ulp2. PLoS One (2014) 0.79
Ubiquitin-family modifications of topoisomerase I in camptothecin-treated human breast cancer cells. Biochemistry (2009) 0.79
A bird's-eye view of post-translational modifications in the spliceosome and their roles in spliceosome dynamics. Mol Biosyst (2010) 0.78
Mapping the SUMOylated landscape. FEBS J (2015) 0.77
SUMO-Enriched Proteome for Drosophila Innate Immune Response. G3 (Bethesda) (2015) 0.76
In vitro identification of nonalcoholic fatty liver disease-related protein hnRNPM. World J Gastroenterol (2015) 0.76
SUMOylation Confers Posttranslational Stability on NPM-ALK Oncogenic Protein. Neoplasia (2015) 0.76
Cloning the human SUMO1 promoter. Mol Biol Rep (2009) 0.75
Proteome-wide Mapping of Endogenous SUMOylation Sites in Mouse Testis. Mol Cell Proteomics (2017) 0.75
SUMO proteomics to decipher the SUMO-modified proteome regulated by various diseases. Proteomics (2014) 0.75
Sumoylation of eIF4A2 affects stress granule formation. J Cell Sci (2016) 0.75
Roles of Sumoylation in mRNA Processing and Metabolism. Adv Exp Med Biol (2017) 0.75
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol (2008) 38.00
Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature (2002) 37.66
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics (2002) 30.58
Mass spectrometry-based proteomics. Nature (2003) 28.94
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. Cell (2006) 20.92
Lysine acetylation targets protein complexes and co-regulates major cellular functions. Science (2009) 20.49
miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs. Genes Dev (2002) 19.24
Universal sample preparation method for proteome analysis. Nat Methods (2009) 16.88
In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc (2006) 16.56
Andromeda: a peptide search engine integrated into the MaxQuant environment. J Proteome Res (2011) 14.82
Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics. Anal Chem (2003) 13.58
Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nat Protoc (2007) 10.71
Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol Cell Proteomics (2005) 10.67
Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap. Mol Cell Proteomics (2005) 10.60
Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast. Nature (2008) 10.28
The minimum information about a proteomics experiment (MIAPE). Nat Biotechnol (2007) 10.24
Proteomic characterization of the human centrosome by protein correlation profiling. Nature (2003) 8.74
Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. Sci Signal (2010) 8.61
Mass spectrometry-based proteomics turns quantitative. Nat Chem Biol (2005) 7.52
Nucleolar proteome dynamics. Nature (2005) 7.32
The multifunctional nucleolus. Nat Rev Mol Cell Biol (2007) 7.08
Directed proteomic analysis of the human nucleolus. Curr Biol (2002) 7.04
Identification of a gene causing human cytochrome c oxidase deficiency by integrative genomics. Proc Natl Acad Sci U S A (2003) 6.87
Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell (2003) 6.77
Selective anchoring of TFIID to nucleosomes by trimethylation of histone H3 lysine 4. Cell (2007) 6.62
Mechanism of regulation of WAVE1-induced actin nucleation by Rac1 and Nck. Nature (2002) 6.26
Reversible lysine acetylation controls the activity of the mitochondrial enzyme acetyl-CoA synthetase 2. Proc Natl Acad Sci U S A (2006) 5.96
RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation. Nat Cell Biol (2008) 5.90
Large-scale proteomic analysis of the human spliceosome. Genome Res (2002) 5.75
Specificity in Toll-like receptor signalling through distinct effector functions of TRAF3 and TRAF6. Nature (2005) 5.72
Analysis of the Plasmodium falciparum proteome by high-accuracy mass spectrometry. Nature (2002) 5.48
Deep proteome and transcriptome mapping of a human cancer cell line. Mol Syst Biol (2011) 5.48
Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. Mol Cell (2008) 5.38
Temporal analysis of phosphotyrosine-dependent signaling networks by quantitative proteomics. Nat Biotechnol (2004) 5.22
A practical recipe for stable isotope labeling by amino acids in cell culture (SILAC). Nat Protoc (2006) 5.21
Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway. Mol Cell Proteomics (2005) 5.07
Higher-energy C-trap dissociation for peptide modification analysis. Nat Methods (2007) 5.04
SILAC mouse for quantitative proteomics uncovers kindlin-3 as an essential factor for red blood cell function. Cell (2008) 5.02
Unbiased quantitative proteomics of lipid rafts reveals high specificity for signaling factors. Proc Natl Acad Sci U S A (2003) 4.87
A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics. Nat Protoc (2009) 4.84
Trypsin cleaves exclusively C-terminal to arginine and lysine residues. Mol Cell Proteomics (2004) 4.79
Proteome-wide analysis of chaperonin-dependent protein folding in Escherichia coli. Cell (2005) 4.78
A dual pressure linear ion trap Orbitrap instrument with very high sequencing speed. Mol Cell Proteomics (2009) 4.75
PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites. Genome Biol (2007) 4.66
A mammalian organelle map by protein correlation profiling. Cell (2006) 4.54
Mdm2-mediated NEDD8 conjugation of p53 inhibits its transcriptional activity. Cell (2004) 4.46
A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. Mol Cell Proteomics (2011) 4.40
Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. Cell (2010) 4.31
The ABC's (and XYZ's) of peptide sequencing. Nat Rev Mol Cell Biol (2004) 4.24
Human Proteinpedia enables sharing of human protein data. Nat Biotechnol (2008) 4.21
Paraspeckles: a novel nuclear domain. Curr Biol (2002) 4.19
Quantitative proteomics reveals subset-specific viral recognition in dendritic cells. Immunity (2010) 4.03
Axin-mediated CKI phosphorylation of beta-catenin at Ser 45: a molecular switch for the Wnt pathway. Genes Dev (2002) 3.80
The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins. Genome Biol (2006) 3.79
Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics (2008) 3.78
Decoding signalling networks by mass spectrometry-based proteomics. Nat Rev Mol Cell Biol (2010) 3.78
Proteome analysis of separated male and female gametocytes reveals novel sex-specific Plasmodium biology. Cell (2005) 3.77
Mass spectrometry-based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer. Mol Cell Proteomics (2011) 3.75
P300 transcriptional repression is mediated by SUMO modification. Mol Cell (2003) 3.67
The nucleolus under stress. Mol Cell (2010) 3.63
Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions. J Cell Biol (2010) 3.61
Precision mapping of an in vivo N-glycoproteome reveals rigid topological and sequence constraints. Cell (2010) 3.60
Stable isotope labeling by amino acids in cell culture (SILAC) and proteome quantitation of mouse embryonic stem cells to a depth of 5,111 proteins. Mol Cell Proteomics (2007) 3.60
Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins. Mol Cell Proteomics (2012) 3.57
Combination of FASP and StageTip-based fractionation allows in-depth analysis of the hippocampal membrane proteome. J Proteome Res (2009) 3.56
Analysis of nucleolar protein dynamics reveals the nuclear degradation of ribosomal proteins. Curr Biol (2007) 3.55
A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signaling. Nat Biotechnol (2003) 3.54
A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility. Cell (2013) 3.53
More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS. J Proteome Res (2011) 3.53
System-wide changes to SUMO modifications in response to heat shock. Sci Signal (2009) 3.50
Phosphotyrosine interactome of the ErbB-receptor kinase family. Mol Syst Biol (2005) 3.48
Improved peptide identification in proteomics by two consecutive stages of mass spectrometric fragmentation. Proc Natl Acad Sci U S A (2004) 3.43
Mass spectrometric-based approaches in quantitative proteomics. Methods (2003) 3.38
Mechanism of divergent growth factor effects in mesenchymal stem cell differentiation. Science (2005) 3.37
Status of complete proteome analysis by mass spectrometry: SILAC labeled yeast as a model system. Genome Biol (2006) 3.34
Arginine methylation at histone H3R2 controls deposition of H3K4 trimethylation. Nature (2007) 3.32
Cajal body dynamics and association with chromatin are ATP-dependent. Nat Cell Biol (2002) 3.28
Nucleosome-interacting proteins regulated by DNA and histone methylation. Cell (2010) 3.25
Quantitative, high-resolution proteomics for data-driven systems biology. Annu Rev Biochem (2011) 3.19
Chromatin-Remodeling Components of the BAF Complex Facilitate Reprogramming. Cell (2010) 3.08
Nuclear speckles. Cold Spring Harb Perspect Biol (2011) 3.04
ERCC1/XPF removes the 3' overhang from uncapped telomeres and represses formation of telomeric DNA-containing double minute chromosomes. Mol Cell (2003) 3.01
Defining the transcriptome and proteome in three functionally different human cell lines. Mol Syst Biol (2010) 3.00
Regulation of ubiquitin-binding proteins by monoubiquitination. Nat Cell Biol (2006) 2.99
Decoding human cytomegalovirus. Science (2012) 2.98
Super-SILAC mix for quantitative proteomics of human tumor tissue. Nat Methods (2010) 2.95
Is proteomics the new genomics? Cell (2007) 2.92
Cajal bodies: a long history of discovery. Annu Rev Cell Dev Biol (2005) 2.92
Live-cell imaging RNAi screen identifies PP2A-B55alpha and importin-beta1 as key mitotic exit regulators in human cells. Nat Cell Biol (2010) 2.91
Mass spectrometry in high-throughput proteomics: ready for the big time. Nat Methods (2010) 2.91
Structure of a RING E3 ligase and ubiquitin-loaded E2 primed for catalysis. Nature (2012) 2.86