Published in Curr Opin Chem Biol on July 19, 2009
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A large synthetic peptide and phosphopeptide reference library for mass spectrometry-based proteomics. Nat Biotechnol (2013) 1.93
Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins. Nat Methods (2013) 1.54
Proteomics meets the scientific method. Nat Methods (2013) 1.30
Phosphoproteomics reveals that Parkinson's disease kinase LRRK2 regulates a subset of Rab GTPases. Elife (2016) 1.20
Evaluating multiplexed quantitative phosphopeptide analysis on a hybrid quadrupole mass filter/linear ion trap/orbitrap mass spectrometer. Anal Chem (2015) 1.10
Robust phosphoproteome enrichment using monodisperse microsphere-based immobilized titanium (IV) ion affinity chromatography. Nat Protoc (2013) 1.09
Quantitative proteomics analysis of phosphorylated proteins in the hippocampus of Alzheimer's disease subjects. J Proteomics (2011) 1.01
Meta-Analysis of Arabidopsis thaliana Phospho-Proteomics Data Reveals Compartmentalization of Phosphorylation Motifs. Plant Cell (2014) 1.01
Phosphoproteomic profiling of in vivo signaling in liver by the mammalian target of rapamycin complex 1 (mTORC1). PLoS One (2011) 0.98
Overview: the maturing of proteomics in cardiovascular research. Circ Res (2011) 0.95
Divide and conquer: the application of organelle proteomics to heart failure. Circ Res (2011) 0.94
Quantitative phosphoproteomics reveals the role of protein arginine phosphorylation in the bacterial stress response. Mol Cell Proteomics (2013) 0.94
Quantitative phosphoproteomics after auxin-stimulated lateral root induction identifies an SNX1 protein phosphorylation site required for growth. Mol Cell Proteomics (2013) 0.93
Rampant purifying selection conserves positions with posttranslational modifications in human proteins. Mol Biol Evol (2011) 0.91
Mining recent brain proteomic databases for ion channel phosphosite nuggets. J Gen Physiol (2010) 0.89
Glycoprotein capture and quantitative phosphoproteomics indicate coordinated regulation of cell migration upon lysophosphatidic acid stimulation. Mol Cell Proteomics (2010) 0.86
Over 2300 Phosphorylated Peptide Identifications with Single-Shot Capillary Zone Electrophoresis-Tandem Mass Spectrometry in a 100 min Separation. Anal Chem (2015) 0.85
Phosphoproteomic analysis of platelets activated by pro-thrombotic oxidized phospholipids and thrombin. PLoS One (2014) 0.84
Comprehensive and reproducible phosphopeptide enrichment using iron immobilized metal ion affinity chromatography (Fe-IMAC) columns. Mol Cell Proteomics (2014) 0.82
Integrating phosphoproteomics in systems biology. Comput Struct Biotechnol J (2014) 0.81
PhosFox: a bioinformatics tool for peptide-level processing of LC-MS/MS-based phosphoproteomic data. Proteome Sci (2014) 0.81
Evaluating experimental bias and completeness in comparative phosphoproteomics analysis. PLoS One (2011) 0.80
Selective Phosphorylation Inhibitor of Delta Protein Kinase C-Pyruvate Dehydrogenase Kinase Protein-Protein Interactions: Application for Myocardial Injury in Vivo. J Am Chem Soc (2016) 0.80
Mercury alters B-cell protein phosphorylation profiles. J Proteome Res (2013) 0.80
Signatures of natural selection on mutations of residues with multiple posttranslational modifications. Mol Biol Evol (2014) 0.77
Understanding cell signaling in cancer stem cells for targeted therapy - can phosphoproteomics help to reveal the secrets? Cell Commun Signal (2017) 0.75
Analysis of protein phosphorylation in nerve terminal reveals extensive changes in active zone proteins upon exocytosis. Elife (2016) 0.75
A phosphotyrosine switch for cargo sequestration at clathrin-coated buds. J Biol Chem (2014) 0.75
A tool to evaluate correspondence between extraction ion chromatographic peaks and peptide-spectrum matches in shotgun proteomics experiments. Proteomics (2013) 0.75
Acetylation and phosphorylation control both local and global stability of the chloroplast F1 ATP synthase. Sci Rep (2017) 0.75
Phosphorylation of plastoglobular proteins in Arabidopsis thaliana. J Exp Bot (2016) 0.75
A crosslinker based on a tethered electrophile for mapping kinase-substrate networks. Chem Biol (2014) 0.75
Phosphoproteomics Analysis of Endometrium in Women with or without Endometriosis. Chin Med J (Engl) (2015) 0.75
Interrogating the hidden phosphoproteome. Proteomics (2017) 0.75
The minimum information about a proteomics experiment (MIAPE). Nat Biotechnol (2007) 10.24
Lgr5 homologues associate with Wnt receptors and mediate R-spondin signalling. Nature (2011) 6.09
Structural basis for CRISPR RNA-guided DNA recognition by Cascade. Nat Struct Mol Biol (2011) 6.02
Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics. Nat Protoc (2009) 4.61
RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions. Proc Natl Acad Sci U S A (2011) 4.58
The CRAPome: a contaminant repository for affinity purification-mass spectrometry data. Nat Methods (2013) 4.34
Selective isolation at the femtomole level of phosphopeptides from proteolytic digests using 2D-NanoLC-ESI-MS/MS and titanium oxide precolumns. Anal Chem (2004) 4.06
Recommendations from the 2008 International Summit on Proteomics Data Release and Sharing Policy: the Amsterdam principles. J Proteome Res (2009) 3.77
The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent '+4' cell markers. EMBO J (2012) 3.70
A high-quality catalog of the Drosophila melanogaster proteome. Nat Biotechnol (2007) 3.34
Quantitative phosphoproteomics of early elicitor signaling in Arabidopsis. Mol Cell Proteomics (2007) 3.33
Phosphorylation dynamics during early differentiation of human embryonic stem cells. Cell Stem Cell (2009) 3.03
Wnt signaling through inhibition of β-catenin degradation in an intact Axin1 complex. Cell (2012) 3.03
Tumour suppressor RNF43 is a stem-cell E3 ligase that induces endocytosis of Wnt receptors. Nature (2012) 2.76
The generating function of CID, ETD, and CID/ETD pairs of tandem mass spectra: applications to database search. Mol Cell Proteomics (2010) 2.64
Regulation of retromer recruitment to endosomes by sequential action of Rab5 and Rab7. J Cell Biol (2008) 2.56
GATA-1 forms distinct activating and repressive complexes in erythroid cells. EMBO J (2005) 2.56
MSQuant, an open source platform for mass spectrometry-based quantitative proteomics. J Proteome Res (2010) 2.40
Sequential waves of functionally related proteins are expressed when B cells prepare for antibody secretion. Immunity (2003) 2.40
Next-generation proteomics: towards an integrative view of proteome dynamics. Nat Rev Genet (2012) 2.39
Metabolic labeling of C. elegans and D. melanogaster for quantitative proteomics. Nat Biotechnol (2003) 2.37
The fluxes through glycolytic enzymes in Saccharomyces cerevisiae are predominantly regulated at posttranscriptional levels. Proc Natl Acad Sci U S A (2007) 2.36
Lipid II is an intrinsic component of the pore induced by nisin in bacterial membranes. J Biol Chem (2003) 2.26
GMP synthetase stimulates histone H2B deubiquitylation by the epigenetic silencer USP7. Mol Cell (2005) 2.21
Differential targeting of two distinct SWI/SNF-related Drosophila chromatin-remodeling complexes. Mol Cell Biol (2004) 2.18
Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. Anal Chem (2009) 2.10
The PRoteomics IDEntification (PRIDE) Converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium. Mol Cell Proteomics (2012) 2.10
Improving the performance of a quadrupole time-of-flight instrument for macromolecular mass spectrometry. Anal Chem (2006) 2.06
Phosphopeptide fragmentation and analysis by mass spectrometry. J Mass Spectrom (2009) 2.04
A quest for human and mouse embryonic stem cell-specific proteins. Mol Cell Proteomics (2006) 2.04
Mass spectrometry-based proteomics and network biology. Annu Rev Biochem (2012) 2.02
A large synthetic peptide and phosphopeptide reference library for mass spectrometry-based proteomics. Nat Biotechnol (2013) 1.93
Improved peptide identification by targeted fragmentation using CID, HCD and ETD on an LTQ-Orbitrap Velos. J Proteome Res (2011) 1.93
Severe acute respiratory syndrome coronavirus (SARS-CoV) infection inhibition using spike protein heptad repeat-derived peptides. Proc Natl Acad Sci U S A (2004) 1.89
Munc13-4 is an effector of rab27a and controls secretion of lysosomes in hematopoietic cells. Mol Biol Cell (2004) 1.85
A central role for TFIID in the pluripotent transcription circuitry. Nature (2013) 1.82
The leukemia-associated Mllt10/Af10-Dot1l are Tcf4/β-catenin coactivators essential for intestinal homeostasis. PLoS Biol (2010) 1.81
Highly robust, automated, and sensitive online TiO2-based phosphoproteomics applied to study endogenous phosphorylation in Drosophila melanogaster. J Proteome Res (2007) 1.80
Monitoring macromolecular complexes involved in the chaperonin-assisted protein folding cycle by mass spectrometry. Nat Methods (2005) 1.79
Ion mobility mass spectrometry of proteins and protein assemblies. Chem Soc Rev (2009) 1.77
Activation of FoxM1 during G2 requires cyclin A/Cdk-dependent relief of autorepression by the FoxM1 N-terminal domain. Mol Cell Biol (2008) 1.67
High-sensitivity Orbitrap mass analysis of intact macromolecular assemblies. Nat Methods (2012) 1.67
High-resolution mass spectrometry of viral assemblies: molecular composition and stability of dimorphic hepatitis B virus capsids. Proc Natl Acad Sci U S A (2008) 1.64
Human Ccr4-Not complexes contain variable deadenylase subunits. Biochem J (2009) 1.61
Native protein mass spectrometry: from intact oligomers to functional machineries. Curr Opin Chem Biol (2004) 1.61
An experimental correction for arginine-to-proline conversion artifacts in SILAC-based quantitative proteomics. Nat Methods (2007) 1.59
Dis3-like 1: a novel exoribonuclease associated with the human exosome. EMBO J (2010) 1.57
Triplex protein quantification based on stable isotope labeling by peptide dimethylation applied to cell and tissue lysates. Proteomics (2008) 1.54
Complement is activated by IgG hexamers assembled at the cell surface. Science (2014) 1.52
Interrogating viral capsid assembly with ion mobility-mass spectrometry. Nat Chem (2010) 1.47
Proteome analysis of yeast response to various nutrient limitations. Mol Syst Biol (2006) 1.47
Straightforward ladder sequencing of peptides using a Lys-N metalloendopeptidase. Nat Methods (2008) 1.46
The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells. Mol Syst Biol (2011) 1.44
Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium. Mol Syst Biol (2012) 1.44
Quantitative proteomics by metabolic labeling of model organisms. Mol Cell Proteomics (2009) 1.42
Structure of the yeast vacuolar ATPase. J Biol Chem (2008) 1.41
Comprehensive analysis of the secreted proteins of the parasite Haemonchus contortus reveals extensive sequence variation and differential immune recognition. J Biol Chem (2003) 1.41
Native tandem and ion mobility mass spectrometry highlight structural and modular similarities in clustered-regularly-interspaced shot-palindromic-repeats (CRISPR)-associated protein complexes from Escherichia coli and Pseudomonas aeruginosa. Mol Cell Proteomics (2012) 1.40
RNA polymerase I contains a TFIIF-related DNA-binding subcomplex. Mol Cell (2010) 1.40
Cooperative action of NC2 and Mot1p to regulate TATA-binding protein function across the genome. Genes Dev (2008) 1.38
Toward a comprehensive characterization of a human cancer cell phosphoproteome. J Proteome Res (2012) 1.37
MHC class II-associated proteins in B-cell exosomes and potential functional implications for exosome biogenesis. Immunol Cell Biol (2010) 1.37
Species-specific determinants in the IgG CH3 domain enable Fab-arm exchange by affecting the noncovalent CH3-CH3 interaction strength. J Immunol (2011) 1.34
Chaperonin complexes monitored by ion mobility mass spectrometry. J Am Chem Soc (2009) 1.33
Toward full peptide sequence coverage by dual fragmentation combining electron-transfer and higher-energy collision dissociation tandem mass spectrometry. Anal Chem (2012) 1.32
On terminal alkynes that can react with active-site cysteine nucleophiles in proteases. J Am Chem Soc (2013) 1.32
Large-scale quantitative assessment of different in-solution protein digestion protocols reveals superior cleavage efficiency of tandem Lys-C/trypsin proteolysis over trypsin digestion. J Proteome Res (2012) 1.32
Targeted analysis of protein termini. J Proteome Res (2007) 1.28
Profiling of N-acetylated protein termini provides in-depth insights into the N-terminal nature of the proteome. Mol Cell Proteomics (2010) 1.28
Determination of stoichiometry and conformational changes in the first step of the P22 tail assembly. J Mol Biol (2008) 1.27
In-depth qualitative and quantitative profiling of tyrosine phosphorylation using a combination of phosphopeptide immunoaffinity purification and stable isotope dimethyl labeling. Mol Cell Proteomics (2009) 1.27
cGMP-binding prepares PKG for substrate binding by disclosing the C-terminal domain. J Mol Biol (2007) 1.27
Norwalk virus assembly and stability monitored by mass spectrometry. Mol Cell Proteomics (2010) 1.26
Stoichiometry of the peripheral stalk subunits E and G of yeast V1-ATPase determined by mass spectrometry. J Biol Chem (2007) 1.26
Endogenous phosphatidylcholine and a long spacer ligand stabilize the lipid-binding groove of CD1b. EMBO J (2006) 1.26
Differential oxidation of protein-tyrosine phosphatases. J Biol Chem (2004) 1.24
Mass spectrometric analysis of the Schistosoma mansoni tegumental sub-proteome. J Proteome Res (2005) 1.23
Coupled activation and degradation of eEF2K regulates protein synthesis in response to genotoxic stress. Sci Signal (2012) 1.23
Tandem mass spectrometry of intact GroEL-substrate complexes reveals substrate-specific conformational changes in the trans ring. J Am Chem Soc (2006) 1.22
Plasma membrane proteomics of human embryonic stem cells and human embryonal carcinoma cells. J Proteome Res (2008) 1.22
Proteome-wide protein concentrations in the human heart. Mol Biosyst (2010) 1.21
Stability and shape of hepatitis B virus capsids in vacuo. Angew Chem Int Ed Engl (2008) 1.20
High precision platelet releasate definition by quantitative reversed protein profiling--brief report. Arterioscler Thromb Vasc Biol (2013) 1.20
Structural biology of RNA polymerase III: mass spectrometry elucidates subcomplex architecture. Structure (2007) 1.19
Structural studies on flavin reductase PheA2 reveal binding of NAD in an unusual folded conformation and support novel mechanism of action. J Biol Chem (2003) 1.18
Neuron specific Rab4 effector GRASP-1 coordinates membrane specialization and maturation of recycling endosomes. PLoS Biol (2010) 1.18
Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes. Microbiology (2007) 1.18
Quantitative proteomics reveals regulation of dynamic components within TATA-binding protein (TBP) transcription complexes. Mol Cell Proteomics (2007) 1.17
Exploring the membrane proteome--challenges and analytical strategies. J Proteomics (2010) 1.15
Evaluation and optimization of ZIC-HILIC-RP as an alternative MudPIT strategy. J Proteome Res (2007) 1.15
Studying 18 MDa virus assemblies with native mass spectrometry. Angew Chem Int Ed Engl (2013) 1.15
Targeted large-scale analysis of protein acetylation. Proteomics (2011) 1.13
Trends in ultrasensitive proteomics. Curr Opin Chem Biol (2012) 1.13
Automated online sequential isotope labeling for protein quantitation applied to proteasome tissue-specific diversity. Mol Cell Proteomics (2008) 1.13
Strong cation exchange-based fractionation of Lys-N-generated peptides facilitates the targeted analysis of post-translational modifications. Mol Cell Proteomics (2008) 1.12
Comparative multiplexed mass spectrometric analyses of endogenously expressed yeast nuclear and cytoplasmic exosomes. J Mol Biol (2008) 1.11
Identification of cell surface proteins for antibody-based selection of human embryonic stem cell-derived cardiomyocytes. J Proteome Res (2010) 1.11
Sphingosine kinase interacting protein is an A-kinase anchoring protein specific for type I cAMP-dependent protein kinase. Chembiochem (2010) 1.11
N-terminal domain of human Hsp90 triggers binding to the cochaperone p23. Proc Natl Acad Sci U S A (2010) 1.11
Expanding the detectable HLA peptide repertoire using electron-transfer/higher-energy collision dissociation (EThcD). Proc Natl Acad Sci U S A (2014) 1.11