Published in Nat Biotechnol on March 01, 2002
Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proc Natl Acad Sci U S A (2004) 13.14
Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc Natl Acad Sci U S A (2004) 10.78
A quantitative atlas of mitotic phosphorylation. Proc Natl Acad Sci U S A (2008) 10.07
Identification of RIP1 kinase as a specific cellular target of necrostatins. Nat Chem Biol (2008) 9.24
Large-scale phosphorylation analysis of mouse liver. Proc Natl Acad Sci U S A (2007) 6.08
Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry. Proc Natl Acad Sci U S A (2007) 5.09
Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry. Proc Natl Acad Sci U S A (2007) 4.01
Advances in proteomics data analysis and display using an accurate mass and time tag approach. Mass Spectrom Rev (2006) 3.80
Phosphoproteome analysis of the human mitotic spindle. Proc Natl Acad Sci U S A (2006) 3.56
Phosphoproteomics of the Arabidopsis plasma membrane and a new phosphorylation site database. Plant Cell (2004) 3.51
Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases. Proc Natl Acad Sci U S A (2007) 3.44
The complete genome and proteome of Mycoplasma mobile. Genome Res (2004) 3.36
Intrinsic disorder is a common feature of hub proteins from four eukaryotic interactomes. PLoS Comput Biol (2006) 3.23
Functional organization of the S. cerevisiae phosphorylation network. Cell (2009) 3.15
A multidimensional chromatography technology for in-depth phosphoproteome analysis. Mol Cell Proteomics (2008) 3.13
Deciphering protein kinase specificity through large-scale analysis of yeast phosphorylation site motifs. Sci Signal (2010) 2.95
Weighing in on ubiquitin: the expanding role of mass-spectrometry-based proteomics. Nat Cell Biol (2005) 2.62
PhosphoPep--a phosphoproteome resource for systems biology research in Drosophila Kc167 cells. Mol Syst Biol (2007) 2.56
GPS: a comprehensive www server for phosphorylation sites prediction. Nucleic Acids Res (2005) 2.44
Quantitative phosphoproteomic analysis of plasma membrane proteins reveals regulatory mechanisms of plant innate immune responses. Plant J (2007) 2.40
Next-generation proteomics: towards an integrative view of proteome dynamics. Nat Rev Genet (2012) 2.39
ProSight PTM 2.0: improved protein identification and characterization for top down mass spectrometry. Nucleic Acids Res (2007) 2.35
PPSP: prediction of PK-specific phosphorylation site with Bayesian decision theory. BMC Bioinformatics (2006) 2.34
Phosphoproteome analysis of Drosophila melanogaster embryos. J Proteome Res (2008) 2.33
Powering through ribosome assembly. RNA (2009) 2.19
Protein analysis by shotgun/bottom-up proteomics. Chem Rev (2013) 2.13
ProSight PTM: an integrated environment for protein identification and characterization by top-down mass spectrometry. Nucleic Acids Res (2004) 2.03
Identification of protein phosphorylation sites by a combination of mass spectrometry and solid phase Edman sequencing. J Biomol Tech (2002) 1.97
Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry. Proc Natl Acad Sci U S A (2009) 1.95
The yeast nuclear pore complex functionally interacts with components of the spindle assembly checkpoint. J Cell Biol (2002) 1.89
Phosphoproteomics for the masses. ACS Chem Biol (2010) 1.83
ABRF-PRG03: phosphorylation site determination. J Biomol Tech (2003) 1.83
Extensive phosphorylation of Smoothened in Hedgehog pathway activation. Proc Natl Acad Sci U S A (2004) 1.81
PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae. Database (Oxford) (2010) 1.78
Global effects of kinase inhibitors on signaling networks revealed by quantitative phosphoproteomics. Mol Cell Proteomics (2009) 1.75
Comparative proteomic and transcriptomic profiling of the fission yeast Schizosaccharomyces pombe. Mol Syst Biol (2007) 1.73
Status of large-scale analysis of post-translational modifications by mass spectrometry. Mol Cell Proteomics (2013) 1.72
Automatic validation of phosphopeptide identifications from tandem mass spectra. Anal Chem (2007) 1.70
Profiling of tyrosine phosphorylation pathways in human cells using mass spectrometry. Proc Natl Acad Sci U S A (2003) 1.68
Bio-orthogonal affinity purification of direct kinase substrates. J Am Chem Soc (2005) 1.67
Modification-specific proteomics: strategies for characterization of post-translational modifications using enrichment techniques. Proteomics (2009) 1.66
An overview of Cdk1-controlled targets and processes. Cell Div (2010) 1.66
Magnetic bead processor for rapid evaluation and optimization of parameters for phosphopeptide enrichment. Anal Chem (2009) 1.65
Use of differential isotopic labeling and mass spectrometry to analyze capacitation-associated changes in the phosphorylation status of mouse sperm proteins. J Proteome Res (2009) 1.64
Toward a protein profile of Escherichia coli: comparison to its transcription profile. Proc Natl Acad Sci U S A (2003) 1.60
The phosphoproteome of bloodstream form Trypanosoma brucei, causative agent of African sleeping sickness. Mol Cell Proteomics (2009) 1.56
Vectorial proteomics reveal targeting, phosphorylation and specific fragmentation of polymerase I and transcript release factor (PTRF) at the surface of caveolae in human adipocytes. Biochem J (2004) 1.53
The PPH1 phosphatase is specifically involved in LHCII dephosphorylation and state transitions in Arabidopsis. Proc Natl Acad Sci U S A (2010) 1.50
Quantitative phosphoproteomics by mass spectrometry: past, present, and future. Proteomics (2008) 1.50
An interactional network of genes involved in chitin synthesis in Saccharomyces cerevisiae. BMC Genet (2005) 1.47
A mechanism for the evolution of phosphorylation sites. Cell (2011) 1.47
Correct interpretation of comprehensive phosphorylation dynamics requires normalization by protein expression changes. Mol Cell Proteomics (2011) 1.47
MMFPh: a maximal motif finder for phosphoproteomics datasets. Bioinformatics (2012) 1.44
Rapid and reproducible single-stage phosphopeptide enrichment of complex peptide mixtures: application to general and phosphotyrosine-specific phosphoproteomics experiments. Anal Chem (2011) 1.40
Profiling signaling polarity in chemotactic cells. Proc Natl Acad Sci U S A (2007) 1.40
Accurate mass measurements in proteomics. Chem Rev (2007) 1.36
Separation of peptide isomers with variant modified sites by high-resolution differential ion mobility spectrometry. Anal Chem (2010) 1.35
Bringing order to protein disorder through comparative genomics and genetic interactions. Genome Biol (2011) 1.34
Phosphoproteomics reveals extensive in vivo phosphorylation of Arabidopsis proteins involved in RNA metabolism. Nucleic Acids Res (2006) 1.34
Improved proteome coverage by using high efficiency cysteinyl peptide enrichment: the human mammary epithelial cell proteome. Proteomics (2005) 1.33
Quantitative proteomic analysis of histone modifications. Chem Rev (2015) 1.32
Modulation of mitochondrial proteome and improved mitochondrial function by biventricular pacing of dyssynchronous failing hearts. Circ Cardiovasc Genet (2009) 1.32
Identification of class I MHC-associated phosphopeptides as targets for cancer immunotherapy. Proc Natl Acad Sci U S A (2006) 1.32
Profiling of N-acetylated protein termini provides in-depth insights into the N-terminal nature of the proteome. Mol Cell Proteomics (2010) 1.28
Mitochondrial phosphoproteome revealed by an improved IMAC method and MS/MS/MS. Mol Cell Proteomics (2007) 1.27
Large-scale discovery of ERK2 substrates identifies ERK-mediated transcriptional regulation by ETV3. Sci Signal (2011) 1.27
From bytes to bedside: data integration and computational biology for translational cancer research. PLoS Comput Biol (2007) 1.27
Large-scale phosphoprotein analysis in Medicago truncatula roots provides insight into in vivo kinase activity in legumes. Plant Physiol (2009) 1.27
Systems-wide analysis of a phosphatase knock-down by quantitative proteomics and phosphoproteomics. Mol Cell Proteomics (2009) 1.26
Targeted analysis and discovery of posttranslational modifications in proteins from methanogenic archaea by top-down MS. Proc Natl Acad Sci U S A (2004) 1.26
A new approach for quantitative phosphoproteomic dissection of signaling pathways applied to T cell receptor activation. Mol Cell Proteomics (2009) 1.25
In silico proteome analysis to facilitate proteomics experiments using mass spectrometry. Proteome Sci (2003) 1.24
Quantitative phosphoproteomic analysis of the tumor necrosis factor pathway. J Proteome Res (2006) 1.23
Abl tyrosine kinase phosphorylates nonmuscle Myosin light chain kinase to regulate endothelial barrier function. Mol Biol Cell (2010) 1.23
Large scale localization of protein phosphorylation by use of electron capture dissociation mass spectrometry. Mol Cell Proteomics (2009) 1.22
Sorting of Pmel17 to melanosomes through the plasma membrane by AP1 and AP2: evidence for the polarized nature of melanocytes. J Cell Sci (2006) 1.20
Quantitation of changes in protein phosphorylation: a simple method based on stable isotope labeling and mass spectrometry. Proc Natl Acad Sci U S A (2003) 1.17
A first line of stress defense: small heat shock proteins and their function in protein homeostasis. J Mol Biol (2015) 1.16
Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation. PLoS One (2008) 1.16
Global analysis of protein expression and phosphorylation of three stages of Plasmodium falciparum intraerythrocytic development. J Proteome Res (2013) 1.15
Identification of a photosystem II phosphatase involved in light acclimation in Arabidopsis. Plant Cell (2012) 1.15
Analysis of proteins and peptides on a chromatographic timescale by electron-transfer dissociation MS. FEBS J (2007) 1.14
Sperm proteomics reveals intensified selection on mouse sperm membrane and acrosome genes. Mol Biol Evol (2010) 1.14
Phosphoproteomic analysis of human brain by calcium phosphate precipitation and mass spectrometry. J Proteome Res (2008) 1.13
Phosphoprotein analysis: from proteins to proteomes. Proteome Sci (2006) 1.12
Large-scale discovery and characterization of protein regulatory motifs in eukaryotes. PLoS One (2010) 1.11
Phosphoproteomic analysis reveals site-specific changes in GFAP and NDRG2 phosphorylation in frontotemporal lobar degeneration. J Proteome Res (2010) 1.10
Stt7-dependent phosphorylation during state transitions in the green alga Chlamydomonas reinhardtii. Mol Cell Proteomics (2010) 1.09
Robust phosphoproteome enrichment using monodisperse microsphere-based immobilized titanium (IV) ion affinity chromatography. Nat Protoc (2013) 1.09
Polar opposites: Fine-tuning cytokinesis through SIN asymmetry. Cytoskeleton (Hoboken) (2012) 1.09
Activation of the G2/M-specific gene CLB2 requires multiple cell cycle signals. Mol Cell Biol (2007) 1.09
Probabilistic enrichment of phosphopeptides by their mass defect. Anal Chem (2006) 1.08
Ptc1p regulates cortical ER inheritance via Slt2p. EMBO J (2006) 1.08
Systems biology from a yeast omics perspective. FEBS Lett (2009) 1.08
Epidermal growth factor receptor phosphorylation sites Ser991 and Tyr998 are implicated in the regulation of receptor endocytosis and phosphorylations at Ser1039 and Thr1041. Mol Cell Proteomics (2009) 1.07
An extensive survey of tyrosine phosphorylation revealing new sites in human mammary epithelial cells. J Proteome Res (2009) 1.07
Domain architecture of the regulators of calcineurin (RCANs) and identification of a divergent RCAN in yeast. Mol Cell Biol (2009) 1.07
Protein kinases associated with the yeast phosphoproteome. BMC Bioinformatics (2006) 1.06
Identification of c-Src tyrosine kinase substrates using mass spectrometry and peptide microarrays. J Proteome Res (2008) 1.06
Enhancing the identification of phosphopeptides from putative basophilic kinase substrates using Ti (IV) based IMAC enrichment. Mol Cell Proteomics (2011) 1.05
Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proc Natl Acad Sci U S A (2004) 13.14
A signalling pathway controlling c-Myc degradation that impacts oncogenic transformation of human cells. Nat Cell Biol (2004) 6.61
Histone methyltransferases direct different degrees of methylation to define distinct chromatin domains. Mol Cell (2003) 6.44
Regulation of HP1-chromatin binding by histone H3 methylation and phosphorylation. Nature (2005) 6.40
A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis. Nature (2002) 6.19
Set2 is a nucleosomal histone H3-selective methyltransferase that mediates transcriptional repression. Mol Cell Biol (2002) 5.42
Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry. Proc Natl Acad Sci U S A (2007) 5.09
Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks. Proc Natl Acad Sci U S A (2007) 4.80
Time-resolved mass spectrometry of tyrosine phosphorylation sites in the epidermal growth factor receptor signaling network reveals dynamic modules. Mol Cell Proteomics (2005) 4.33
Novel linear quadrupole ion trap/FT mass spectrometer: performance characterization and use in the comparative analysis of histone H3 post-translational modifications. J Proteome Res (2004) 4.32
Aurora B phosphorylates centromeric MCAK and regulates its localization and microtubule depolymerization activity. Curr Biol (2004) 4.20
Organismal differences in post-translational modifications in histones H3 and H4. J Biol Chem (2006) 3.84
Chemical derivatization of histones for facilitated analysis by mass spectrometry. Nat Protoc (2007) 3.78
Midzone activation of aurora B in anaphase produces an intracellular phosphorylation gradient. Nature (2008) 3.77
Gene silencing: trans-histone regulatory pathway in chromatin. Nature (2002) 3.77
Protein identification using sequential ion/ion reactions and tandem mass spectrometry. Proc Natl Acad Sci U S A (2005) 3.77
Identification of the beta cell antigen targeted by a prevalent population of pathogenic CD8+ T cells in autoimmune diabetes. Proc Natl Acad Sci U S A (2003) 3.75
Protein architecture of the human kinetochore microtubule attachment site. Cell (2009) 3.68
The dissociation of cohesin from chromosomes in prophase is regulated by Polo-like kinase. Mol Cell (2002) 3.65
Quantitative analysis of EGFRvIII cellular signaling networks reveals a combinatorial therapeutic strategy for glioblastoma. Proc Natl Acad Sci U S A (2007) 3.63
Sustained phenotypic correction of hemophilia B dogs with a factor IX null mutation by liver-directed gene therapy. Blood (2002) 3.45
Aurora B is enriched at merotelic attachment sites, where it regulates MCAK. Curr Biol (2006) 3.22
Inhibition of aurora B kinase blocks chromosome segregation, overrides the spindle checkpoint, and perturbs microtubule dynamics in mitosis. Curr Biol (2002) 3.17
Mechanism of Aurora B activation by INCENP and inhibition by hesperadin. Mol Cell (2005) 3.14
Histone H3 Thr-3 phosphorylation by Haspin positions Aurora B at centromeres in mitosis. Science (2010) 3.13
Cathepsin L proteolytically processes histone H3 during mouse embryonic stem cell differentiation. Cell (2008) 3.09
A neutral loss activation method for improved phosphopeptide sequence analysis by quadrupole ion trap mass spectrometry. Anal Chem (2004) 3.08
The highly conserved Ndc80 complex is required for kinetochore assembly, chromosome congression, and spindle checkpoint activity. Genes Dev (2003) 3.04
Effects of HER2 overexpression on cell signaling networks governing proliferation and migration. Mol Syst Biol (2006) 3.01
Expression patterns and post-translational modifications associated with mammalian histone H3 variants. J Biol Chem (2005) 3.00
14-3-3sigma controls mitotic translation to facilitate cytokinesis. Nature (2007) 2.98
The utility of ETD mass spectrometry in proteomic analysis. Biochim Biophys Acta (2006) 2.85
The spindle assembly and spindle position checkpoints. Annu Rev Genet (2003) 2.84
Extensive crosstalk between O-GlcNAcylation and phosphorylation regulates cytokinesis. Sci Signal (2010) 2.79
Aurora B kinase exists in a complex with survivin and INCENP and its kinase activity is stimulated by survivin binding and phosphorylation. Mol Biol Cell (2002) 2.56
MAPKAP kinase 2 phosphorylates tristetraprolin on in vivo sites including Ser178, a site required for 14-3-3 binding. J Biol Chem (2003) 2.53
The bromodomain protein Brd4 insulates chromatin from DNA damage signalling. Nature (2013) 2.46
Long-distance combinatorial linkage between methylation and acetylation on histone H3 N termini. Proc Natl Acad Sci U S A (2007) 2.43
Kinetochore attachments require an interaction between unstructured tails on microtubules and Ndc80(Hec1). Curr Biol (2008) 2.38
Oncogenic EGFR signaling networks in glioma. Sci Signal (2009) 2.38
N-terminal alpha-methylation of RCC1 is necessary for stable chromatin association and normal mitosis. Nat Cell Biol (2007) 2.36
Insulin controls subcellular localization and multisite phosphorylation of the phosphatidic acid phosphatase, lipin 1. J Biol Chem (2006) 2.32
The vertebrate Ndc80 complex contains Spc24 and Spc25 homologs, which are required to establish and maintain kinetochore-microtubule attachment. Curr Biol (2004) 2.31
Phosphorylation regulates SIRT1 function. PLoS One (2008) 2.30
Discovery and validation of new protein biomarkers for urothelial cancer: a prospective analysis. Lancet Oncol (2006) 2.29
Applications of orthogonal "click" chemistries in the synthesis of functional soft materials. Chem Rev (2009) 2.28
Mass spectrometry analysis of Arabidopsis histone H3 reveals distinct combinations of post-translational modifications. Nucleic Acids Res (2004) 2.28
Centromeric Aurora-B activation requires TD-60, microtubules, and substrate priming phosphorylation. Science (2008) 2.28
O-GlcNAc regulates FoxO activation in response to glucose. J Biol Chem (2008) 2.27
Electron transfer dissociation of peptide anions. J Am Soc Mass Spectrom (2005) 2.26
RNAi-dependent H3K27 methylation is required for heterochromatin formation and DNA elimination in Tetrahymena. Genes Dev (2007) 2.26
Saccharomyces cerevisiae Rad9 acts as a Mec1 adaptor to allow Rad53 activation. Curr Biol (2005) 2.20
The reversibility of mitotic exit in vertebrate cells. Nature (2006) 2.16
Sloppy models, parameter uncertainty, and the role of experimental design. Mol Biosyst (2010) 2.12
Developmental control of late replication and S phase length. Curr Biol (2010) 2.10
Androgen receptor phosphorylation. Regulation and identification of the phosphorylation sites. J Biol Chem (2002) 2.01
Genomic and functional evolution of the Drosophila melanogaster sperm proteome. Nat Genet (2006) 1.97
Regulation of Cdc25C by ERK-MAP kinases during the G2/M transition. Cell (2007) 1.97
Phosphoproteome analysis of capacitated human sperm. Evidence of tyrosine phosphorylation of a kinase-anchoring protein 3 and valosin-containing protein/p97 during capacitation. J Biol Chem (2002) 1.96
NRMT is an alpha-N-methyltransferase that methylates RCC1 and retinoblastoma protein. Nature (2010) 1.95
Characterization of histones and their post-translational modifications by mass spectrometry. Curr Opin Chem Biol (2006) 1.92