Published in J Proteome Res on March 01, 2007
Identification of RIP1 kinase as a specific cellular target of necrostatins. Nat Chem Biol (2008) 9.24
The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry. Nat Protoc (2008) 5.10
Global mapping of the topography and magnitude of proteolytic events in apoptosis. Cell (2008) 3.64
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
Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species. PLoS Biol (2009) 2.67
Large-scale proteomics analysis of the human kinome. Mol Cell Proteomics (2009) 2.49
An integrated, directed mass spectrometric approach for in-depth characterization of complex peptide mixtures. Mol Cell Proteomics (2008) 2.35
Phosphoproteome analysis of Drosophila melanogaster embryos. J Proteome Res (2008) 2.33
The impact of peptide abundance and dynamic range on stable-isotope-based quantitative proteomic analyses. J Proteome Res (2008) 2.11
Dephosphorylation of F-BAR protein Cdc15 modulates its conformation and stimulates its scaffolding activity at the cell division site. Mol Cell (2010) 2.02
Metabolism and regulation of glycerolipids in the yeast Saccharomyces cerevisiae. Genetics (2012) 1.98
PhosphoPep--a database of protein phosphorylation sites in model organisms. Nat Biotechnol (2008) 1.96
A large-scale method to measure absolute protein phosphorylation stoichiometries. Nat Methods (2011) 1.87
PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae. Database (Oxford) (2010) 1.78
Incorporation into the prereplicative complex activates the Mcm2-7 helicase for Cdc7-Dbf4 phosphorylation. Genes Dev (2009) 1.76
Phosphatidic acid phosphatase, a key enzyme in the regulation of lipid synthesis. J Biol Chem (2008) 1.76
Modification-specific proteomics: strategies for characterization of post-translational modifications using enrichment techniques. Proteomics (2009) 1.66
Prokaryotic ubiquitin-like protein (Pup) proteome of Mycobacterium tuberculosis [corrected] . PLoS One (2010) 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
The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates. Mol Biol Cell (2010) 1.58
Regulation of RNA polymerase III transcription involves SCH9-dependent and SCH9-independent branches of the target of rapamycin (TOR) pathway. J Biol Chem (2009) 1.51
Proteomic analysis of GLUT4 storage vesicles reveals LRP1 to be an important vesicle component and target of insulin signaling. J Biol Chem (2009) 1.45
Mek1 kinase is regulated to suppress double-strand break repair between sister chromatids during budding yeast meiosis. Mol Cell Biol (2007) 1.38
Bringing order to protein disorder through comparative genomics and genetic interactions. Genome Biol (2011) 1.34
ABC transporters in Saccharomyces cerevisiae and their interactors: new technology advances the biology of the ABCC (MRP) subfamily. Microbiol Mol Biol Rev (2009) 1.34
Tandem mass spectrometry with ultrahigh mass accuracy clarifies peptide identification by database retrieval. J Proteome Res (2009) 1.33
An initial characterization of the serum phosphoproteome. J Proteome Res (2009) 1.26
Quantitative time-resolved phosphoproteomic analysis of mast cell signaling. J Immunol (2007) 1.16
Posttranslational regulation impacts the fate of duplicated genes. Proc Natl Acad Sci U S A (2009) 1.16
Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation. PLoS One (2008) 1.16
Systematic analysis of protein phosphorylation networks from phosphoproteomic data. Mol Cell Proteomics (2012) 1.15
Cdk phosphorylation of a nucleoporin controls localization of active genes through the cell cycle. Mol Biol Cell (2010) 1.10
Mass spectrometry-based approaches toward absolute quantitative proteomics. Curr Genomics (2008) 1.10
The phosphoproteome of the minimal bacterium Mycoplasma pneumoniae: analysis of the complete known Ser/Thr kinome suggests the existence of novel kinases. Mol Cell Proteomics (2010) 1.09
Polar opposites: Fine-tuning cytokinesis through SIN asymmetry. Cytoskeleton (Hoboken) (2012) 1.09
Systems biology from a yeast omics perspective. FEBS Lett (2009) 1.08
Reconstitution of the Mycobacterium tuberculosis pupylation pathway in Escherichia coli. EMBO Rep (2011) 1.04
Clinical and technical phosphoproteomic research. Proteome Sci (2011) 1.04
Regulation of pol III transcription by nutrient and stress signaling pathways. Biochim Biophys Acta (2012) 1.04
Cell cycle-dependent phosphorylation and ubiquitination of a G protein alpha subunit. J Biol Chem (2011) 1.03
Diverse protein kinase interactions identified by protein microarrays reveal novel connections between cellular processes. Genes Dev (2011) 1.03
Elm1 kinase activates the spindle position checkpoint kinase Kin4. J Cell Biol (2010) 1.01
Taking aim at shotgun phosphoproteomics. Anal Biochem (2007) 0.99
Evaluation and properties of the budding yeast phosphoproteome. Mol Cell Proteomics (2012) 0.96
Comparison of MS(2)-only, MSA, and MS(2)/MS(3) methodologies for phosphopeptide identification. J Proteome Res (2009) 0.95
Negative regulation of the yeast ABC transporter Ycf1p by phosphorylation within its N-terminal extension. J Biol Chem (2008) 0.95
Phosphorylation network rewiring by gene duplication. Mol Syst Biol (2011) 0.95
Differential proteomic analysis of mammalian tissues using SILAM. PLoS One (2011) 0.94
Site specific phosphorylation of yeast RNA polymerase I. Nucleic Acids Res (2007) 0.94
Ultraviolet photodissociation for characterization of whole proteins on a chromatographic time scale. Anal Chem (2014) 0.94
Protein phosphatase type 1 directs chitin synthesis at the bud neck in Saccharomyces cerevisiae. Mol Biol Cell (2008) 0.93
The histone H3K36 demethylase Rph1/KDM4 regulates the expression of the photoreactivation gene PHR1. Nucleic Acids Res (2011) 0.93
Protein abundance is key to distinguish promiscuous from functional phosphorylation based on evolutionary information. Philos Trans R Soc Lond B Biol Sci (2012) 0.92
Reciprocal phosphorylation of yeast glycerol-3-phosphate dehydrogenases in adaptation to distinct types of stress. Mol Cell Biol (2012) 0.92
Neutrophil elastase cleaves VEGF to generate a VEGF fragment with altered activity. Am J Physiol Lung Cell Mol Physiol (2009) 0.92
Phosphopeptide characterization by mass spectrometry using reversed-phase supports for solid-phase β-elimination/Michael addition. J Biomol Tech (2012) 0.92
The Saccharomyces cerevisiae Nrd1-Nab3 transcription termination pathway acts in opposition to Ras signaling and mediates response to nutrient depletion. Mol Cell Biol (2012) 0.92
Systematic analysis of essential genes reveals important regulators of G protein signaling. Mol Cell (2010) 0.91
G Protein Mono-ubiquitination by the Rsp5 Ubiquitin Ligase. J Biol Chem (2009) 0.91
Antagonistic regulation of Fus2p nuclear localization by pheromone signaling and the cell cycle. J Cell Biol (2009) 0.90
Large-scale phosphoproteome of human whole saliva using disulfide-thiol interchange covalent chromatography and mass spectrometry. Anal Biochem (2010) 0.89
Phosphoproteomic analysis of protein kinase C signaling in Saccharomyces cerevisiae reveals Slt2 mitogen-activated protein kinase (MAPK)-dependent phosphorylation of eisosome core components. Mol Cell Proteomics (2012) 0.88
Network evolution: rewiring and signatures of conservation in signaling. PLoS Comput Biol (2012) 0.88
She3p possesses a novel activity required for ASH1 mRNA localization in Saccharomyces cerevisiae. Eukaryot Cell (2009) 0.87
Phosphoproteomics by mass spectrometry: insights, implications, applications and limitations. Expert Rev Proteomics (2009) 0.86
Cross-talk phosphorylations by protein kinase C and Pho85p-Pho80p protein kinase regulate Pah1p phosphatidate phosphatase abundance in Saccharomyces cerevisiae. J Biol Chem (2014) 0.86
Protein expression signatures for inhibition of epidermal growth factor receptor-mediated signaling. Mol Cell Proteomics (2011) 0.86
Regulation of ABC transporter function via phosphorylation by protein kinases. Curr Pharm Biotechnol (2011) 0.86
Bacterial phosphoproteomic analysis reveals the correlation between protein phosphorylation and bacterial pathogenicity. Genomics Proteomics Bioinformatics (2011) 0.85
Sit4p/PP6 regulates ER-to-Golgi traffic by controlling the dephosphorylation of COPII coat subunits. Mol Biol Cell (2013) 0.85
Mediator phosphorylation prevents stress response transcription during non-stress conditions. J Biol Chem (2012) 0.85
In vivo phosphorylation of Ser21 and Ser83 during nutrient-induced activation of the yeast protein kinase A (PKA) target trehalase. J Biol Chem (2012) 0.85
Restriction of histone gene transcription to S phase by phosphorylation of a chromatin boundary protein. Genes Dev (2011) 0.85
Regulation of clathrin-mediated endocytosis by dynamic ubiquitination and deubiquitination. Curr Biol (2014) 0.84
Biogenesis of the preprotein translocase of the outer mitochondrial membrane: protein kinase A phosphorylates the precursor of Tom40 and impairs its import. Mol Biol Cell (2012) 0.83
Novel Ser/Thr protein phosphatase 5 (PP5) regulated targets during DNA damage identified by proteomics analysis. J Proteome Res (2010) 0.82
Suppression of Ycf1p function by Cka1p-dependent phosphorylation is attenuated in response to salt stress. FEMS Yeast Res (2010) 0.82
Phosphorylation provides a negative mode of regulation for the yeast Rab GTPase Sec4p. PLoS One (2011) 0.82
Phosphoproteomics of vasopressin signaling in the kidney. Expert Rev Proteomics (2011) 0.82
CASCADE_SCAN: mining signal transduction network from high-throughput data based on steepest descent method. BMC Bioinformatics (2011) 0.82
Dissecting phosphorylation networks: lessons learned from yeast. Expert Rev Proteomics (2011) 0.82
Phosphoprotein profiling by PA-GeLC-MS/MS. J Proteome Res (2008) 0.81
Rho1- and Pkc1-dependent phosphorylation of the F-BAR protein Syp1 contributes to septin ring assembly. Mol Biol Cell (2015) 0.81
Structural and functional characterization of a phosphatase domain within yeast general transcription factor IIIC. J Biol Chem (2013) 0.80
Cdk1-dependent regulation of the Mre11 complex couples DNA repair pathways to cell cycle progression. Cell Cycle (2014) 0.80
Phosphoproteomics and lung cancer research. Int J Mol Sci (2012) 0.79
Ser149 is another potential PKA phosphorylation target of Cdc25B in G2/M transition of fertilized mouse eggs. J Biol Chem (2011) 0.79
Phosphorylation of Dgk1 Diacylglycerol Kinase by Casein Kinase II Regulates Phosphatidic Acid Production in Saccharomyces cerevisiae. J Biol Chem (2016) 0.79
A mechanism for the coordination of proliferation and differentiation by spatial regulation of Fus2p in budding yeast. Genes Dev (2012) 0.79
Phosphorylation regulates the ubiquitin-independent degradation of yeast Pah1 phosphatidate phosphatase by the 20S proteasome. J Biol Chem (2015) 0.79
Challenges in plasma membrane phosphoproteomics. Expert Rev Proteomics (2011) 0.79
Phosphorylation of yeast transcription factors correlates with the evolution of novel sequence and function. J Proteome Res (2011) 0.78
A bird's-eye view of post-translational modifications in the spliceosome and their roles in spliceosome dynamics. Mol Biosyst (2010) 0.78
Cell cycle phosphorylation of mitotic exit network (MEN) proteins. Cell Cycle (2011) 0.78
The Not4 RING E3 Ligase: A Relevant Player in Cotranslational Quality Control. ISRN Mol Biol (2013) 0.77
Snf1 Phosphorylates Adenylate Cyclase and Negatively Regulates Protein Kinase A-dependent Transcription in Saccharomyces cerevisiae. J Biol Chem (2015) 0.77
eIF2 interactions with initiator tRNA and eIF2B are regulated by post-translational modifications and conformational dynamics. Cell Discov (2015) 0.77
The protein factor-arrest 11 (Far11) is essential for the toxicity of human caspase-10 in yeast and participates in the regulation of autophagy and the DNA damage signaling. J Biol Chem (2012) 0.77
The impact of microRNAs on protein output. Nature (2008) 32.39
Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1. Nature (2005) 18.41
A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat Biotechnol (2006) 12.13
Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: the yeast proteome. J Proteome Res (2003) 11.96
Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc Natl Acad Sci U S A (2004) 10.78
A proteomics approach to understanding protein ubiquitination. Nat Biotechnol (2003) 10.51
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
A tissue-specific atlas of mouse protein phosphorylation and expression. Cell (2010) 8.65
Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations. Nat Methods (2005) 6.73
Large-scale phosphorylation analysis of mouse liver. Proc Natl Acad Sci U S A (2007) 6.08
Phosphoproteomic analysis identifies Grb10 as an mTORC1 substrate that negatively regulates insulin signaling. Science (2011) 5.73
Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution. Science (2009) 5.37
A conserved MST-FOXO signaling pathway mediates oxidative-stress responses and extends life span. Cell (2006) 5.36
Signaling networks assembled by oncogenic EGFR and c-Met. Proc Natl Acad Sci U S A (2008) 5.08
Regulation of monoubiquitinated PCNA by DUB autocleavage. Nat Cell Biol (2006) 4.67
Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell (2004) 4.34
Optimization and use of peptide mass measurement accuracy in shotgun proteomics. Mol Cell Proteomics (2006) 4.25
Local radiation therapy of B16 melanoma tumors increases the generation of tumor antigen-specific effector cells that traffic to the tumor. J Immunol (2005) 4.18
The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods (2005) 3.71
MS3 eliminates ratio distortion in isobaric multiplexed quantitative proteomics. Nat Methods (2011) 3.40
Intensity-based protein identification by machine learning from a library of tandem mass spectra. Nat Biotechnol (2004) 3.30
A UAF1-containing multisubunit protein complex regulates the Fanconi anemia pathway. Mol Cell (2007) 3.27
Profiling of UV-induced ATM/ATR signaling pathways. Proc Natl Acad Sci U S A (2007) 3.12
Dicer-dependent endothelial microRNAs are necessary for postnatal angiogenesis. Proc Natl Acad Sci U S A (2008) 3.03
Chemical genetic screen for AMPKα2 substrates uncovers a network of proteins involved in mitosis. Mol Cell (2011) 2.99
Steps in assembly of silent chromatin in yeast: Sir3-independent binding of a Sir2/Sir4 complex to silencers and role for Sir2-dependent deacetylation. Mol Cell Biol (2002) 2.93
A function for cyclin D1 in DNA repair uncovered by protein interactome analyses in human cancers. Nature (2011) 2.82
RNAi-dependent and -independent RNA turnover mechanisms contribute to heterochromatic gene silencing. Cell (2007) 2.78
Systematic functional prioritization of protein posttranslational modifications. Cell (2012) 2.78
Akt-RSK-S6 kinase signaling networks activated by oncogenic receptor tyrosine kinases. Sci Signal (2010) 2.64
A proteomic strategy for gaining insights into protein sumoylation in yeast. Mol Cell Proteomics (2004) 2.58
A proteomics approach for the identification and cloning of monoclonal antibodies from serum. Nat Biotechnol (2012) 2.51
Phosphoproteomic analysis of the developing mouse brain. Mol Cell Proteomics (2004) 2.50
BRCA1-dependent ubiquitination of gamma-tubulin regulates centrosome number. Mol Cell Biol (2004) 2.46
Phosphoproteome analysis of Drosophila melanogaster embryos. J Proteome Res (2008) 2.33
Quantitative phosphoproteomics identifies substrates and functional modules of Aurora and Polo-like kinase activities in mitotic cells. Sci Signal (2011) 2.33
Two different Argonaute complexes are required for siRNA generation and heterochromatin assembly in fission yeast. Nat Struct Mol Biol (2007) 2.32
The phosphoproteomes of Plasmodium falciparum and Toxoplasma gondii reveal unusual adaptations within and beyond the parasites' boundaries. Cell Host Microbe (2011) 2.25
Quantitative phosphorylation profiling of the ERK/p90 ribosomal S6 kinase-signaling cassette and its targets, the tuberous sclerosis tumor suppressors. Proc Natl Acad Sci U S A (2005) 2.23
In situ observation of protein phosphorylation by high-resolution NMR spectroscopy. Nat Struct Mol Biol (2008) 2.23
Transcriptional role of cyclin D1 in development revealed by a genetic-proteomic screen. Nature (2010) 2.20
UAF1 is a subunit of multiple deubiquitinating enzyme complexes. J Biol Chem (2008) 2.17
The impact of peptide abundance and dynamic range on stable-isotope-based quantitative proteomic analyses. J Proteome Res (2008) 2.11
Chaperone-mediated pathway of proteasome regulatory particle assembly. Nature (2009) 2.07
Inhibition of homologous recombination by a cohesin-associated clamp complex recruited to the rDNA recombination enhancer. Genes Dev (2006) 1.98
A cullin E3 ubiquitin ligase complex associates with Rik1 and the Clr4 histone H3-K9 methyltransferase and is required for RNAi-mediated heterochromatin formation. RNA Biol (2005) 1.98
Increasing the multiplexing capacity of TMTs using reporter ion isotopologues with isobaric masses. Anal Chem (2012) 1.96
Radiation-induced IFN-gamma production within the tumor microenvironment influences antitumor immunity. J Immunol (2008) 1.93
Phosphoproteome analysis of fission yeast. J Proteome Res (2008) 1.91
A large-scale method to measure absolute protein phosphorylation stoichiometries. Nat Methods (2011) 1.87
Cdk1-dependent regulation of the mitotic inhibitor Wee1. Cell (2005) 1.85
S. pombe LSD1 homologs regulate heterochromatin propagation and euchromatic gene transcription. Mol Cell (2007) 1.84
Enhanced analysis of metastatic prostate cancer using stable isotopes and high mass accuracy instrumentation. J Proteome Res (2006) 1.82
MultiNotch MS3 enables accurate, sensitive, and multiplexed detection of differential expression across cancer cell line proteomes. Anal Chem (2014) 1.81
Quantitative proteomics reveals a dynamic interactome and phase-specific phosphorylation in the Neurospora circadian clock. Mol Cell (2009) 1.80
The HEAT repeat protein Blm10 regulates the yeast proteasome by capping the core particle. Nat Struct Mol Biol (2005) 1.78
Isolation of mammalian 26S proteasomes and p97/VCP complexes using the ubiquitin-like domain from HHR23B reveals novel proteasome-associated proteins. Biochemistry (2009) 1.78
Cdc2-like kinase 2 is an insulin-regulated suppressor of hepatic gluconeogenesis. Cell Metab (2010) 1.75
Proteomic profiling of ClpXP substrates after DNA damage reveals extensive instability within SOS regulon. Mol Cell (2006) 1.74
Succinate dehydrogenase is a direct target of sirtuin 3 deacetylase activity. PLoS One (2011) 1.73
The effects of mass accuracy, data acquisition speed, and search algorithm choice on peptide identification rates in phosphoproteomics. Anal Bioanal Chem (2007) 1.69
INF2 is an endoplasmic reticulum-associated formin protein. J Cell Sci (2009) 1.67
The Parkinson's disease-associated DJ-1 protein is a transcriptional co-activator that protects against neuronal apoptosis. Hum Mol Genet (2005) 1.66
Global phosphorylation analysis of beta-arrestin-mediated signaling downstream of a seven transmembrane receptor (7TMR). Proc Natl Acad Sci U S A (2010) 1.64
Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation. Nat Methods (2013) 1.60
Effects of MEK inhibitors GSK1120212 and PD0325901 in vivo using 10-plex quantitative proteomics and phosphoproteomics. Proteomics (2014) 1.54
Comparison of human fetal liver, umbilical cord blood, and adult blood hematopoietic stem cell engraftment in NOD-scid/gammac-/-, Balb/c-Rag1-/-gammac-/-, and C.B-17-scid/bg immunodeficient mice. Hum Immunol (2009) 1.53
Immunoaffinity enrichment and mass spectrometry analysis of protein methylation. Mol Cell Proteomics (2013) 1.53
Identification of beta-secretase (BACE1) substrates using quantitative proteomics. PLoS One (2009) 1.52
Characterization of mouse spleen cells by subtractive proteomics. Mol Cell Proteomics (2005) 1.51
Regulation of neuronal cell death by MST1-FOXO1 signaling. J Biol Chem (2009) 1.51
FUS-SMN protein interactions link the motor neuron diseases ALS and SMA. Cell Rep (2012) 1.50
On a dark-field signal generated by micrometer-sized calcifications in phase-contrast mammography. Phys Med Biol (2013) 1.47
Correct interpretation of comprehensive phosphorylation dynamics requires normalization by protein expression changes. Mol Cell Proteomics (2011) 1.47
Myc protein is stabilized by suppression of a novel E3 ligase complex in cancer cells. Genes Dev (2010) 1.46
Proteomic profiling of gamma-secretase substrates and mapping of substrate requirements. PLoS Biol (2008) 1.45
MMFPh: a maximal motif finder for phosphoproteomics datasets. Bioinformatics (2012) 1.44