Published in Proteomics on January 01, 2010
Naturally occurring human urinary peptides for use in diagnosis of chronic kidney disease. Mol Cell Proteomics (2010) 1.90
The Negative Mode Proteome with Activated Ion Negative Electron Transfer Dissociation (AI-NETD). Mol Cell Proteomics (2015) 1.51
Identification of a general O-linked protein glycosylation system in Acinetobacter baumannii and its role in virulence and biofilm formation. PLoS Pathog (2012) 1.41
A proteomics search algorithm specifically designed for high-resolution tandem mass spectra. J Proteome Res (2013) 1.40
Multicentric validation of proteomic biomarkers in urine specific for diabetic nephropathy. PLoS One (2010) 1.12
Accurate peptide fragment mass analysis: multiplexed peptide identification and quantification. J Proteome Res (2012) 1.10
A face in the crowd: recognizing peptides through database search. Mol Cell Proteomics (2011) 1.07
Analysis of the acidic proteome with negative electron-transfer dissociation mass spectrometry. Anal Chem (2012) 1.05
Comprehensive mass spectrometric mapping of the hydroxylated amino acid residues of the α1(V) collagen chain. J Biol Chem (2012) 0.99
Electron transfer dissociation mass spectrometry in proteomics. Proteomics (2012) 0.97
Diversity in the protein N-glycosylation pathways within the Campylobacter genus. Mol Cell Proteomics (2012) 0.93
Urine proteome analysis reflects atherosclerotic disease in an ApoE-/- mouse model and allows the discovery of new candidate biomarkers in mouse and human atherosclerosis. Mol Cell Proteomics (2012) 0.88
Enhanced peptide identification by electron transfer dissociation using an improved Mascot Percolator. Mol Cell Proteomics (2012) 0.86
Diversity within the O-linked protein glycosylation systems of acinetobacter species. Mol Cell Proteomics (2014) 0.85
A Calibration Routine for Efficient ETD in Large-Scale Proteomics. J Am Soc Mass Spectrom (2015) 0.84
Peptide Sequence Analysis by Electron Transfer Dissociation Mass Spectrometry: A Web-Based Tutorial. J Am Soc Mass Spectrom (2015) 0.78
Phosphoproteomics with Activated Ion Electron Transfer Dissociation. Anal Chem (2017) 0.77
Implementation of Activated Ion Electron Transfer Dissociation on a Quadrupole-Orbitrap-Linear Ion Trap Hybrid Mass Spectrometer. Anal Chem (2017) 0.77
Computational phosphoproteomics: from identification to localization. Proteomics (2015) 0.76
In silico proteome-wide amino aCid and elemental composition (PACE) analysis of expression proteomics data provides a fingerprint of dominant metabolic processes. Genomics Proteomics Bioinformatics (2013) 0.75
ETD fragmentation features improve algorithm. Expert Rev Proteomics (2012) 0.75
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J Am Soc Mass Spectrom (1994) 45.51
Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis (1999) 45.01
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat Methods (2007) 25.29
Open mass spectrometry search algorithm. J Proteome Res (2004) 15.25
Decision tree-driven tandem mass spectrometry for shotgun proteomics. Nat Methods (2008) 3.53
Post-acquisition ETD spectral processing for increased peptide identifications. J Am Soc Mass Spectrom (2009) 1.86
A new probabilistic database search algorithm for ETD spectra. J Proteome Res (2009) 1.15
Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proc Natl Acad Sci U S A (2004) 13.14
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
Probing the dynamics of O-GlcNAc glycosylation in the brain using quantitative proteomics. Nat Chem Biol (2007) 3.60
Decision tree-driven tandem mass spectrometry for shotgun proteomics. Nat Methods (2008) 3.53
Supplemental activation method for high-efficiency electron-transfer dissociation of doubly protonated peptide precursors. Anal Chem (2007) 3.32
Performance characteristics of electron transfer dissociation mass spectrometry. Mol Cell Proteomics (2007) 3.09
A neutral loss activation method for improved phosphopeptide sequence analysis by quadrupole ion trap mass spectrometry. Anal Chem (2004) 3.08
Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics. Mol Cell Proteomics (2012) 3.05
The utility of ETD mass spectrometry in proteomic analysis. Biochim Biophys Acta (2006) 2.85
Calorie restriction and SIRT3 trigger global reprogramming of the mitochondrial protein acetylome. Mol Cell (2012) 2.54
A dynamic model of proteome changes reveals new roles for transcript alteration in yeast. Mol Syst Biol (2011) 2.44
Proteomic and phosphoproteomic comparison of human ES and iPS cells. Nat Methods (2011) 2.39
Value of using multiple proteases for large-scale mass spectrometry-based proteomics. J Proteome Res (2010) 2.36
Mass spectrometry identifies and quantifies 74 unique histone H4 isoforms in differentiating human embryonic stem cells. Proc Natl Acad Sci U S A (2008) 2.29
Dual-pressure linear ion trap mass spectrometer improving the analysis of complex protein mixtures. Anal Chem (2009) 2.20
COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA. Proteomics (2011) 2.19
Urinary proteomics in diabetes and CKD. J Am Soc Nephrol (2008) 2.12
The one hour yeast proteome. Mol Cell Proteomics (2013) 2.10
Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry. Proc Natl Acad Sci U S A (2009) 1.95
Implementation of electron-transfer dissociation on a hybrid linear ion trap-orbitrap mass spectrometer. Anal Chem (2007) 1.92
A proteomics grade electron transfer dissociation-enabled hybrid linear ion trap-orbitrap mass spectrometer. J Proteome Res (2008) 1.92
Naturally occurring human urinary peptides for use in diagnosis of chronic kidney disease. Mol Cell Proteomics (2010) 1.90
Gas-phase purification enables accurate, multiplexed proteome quantification with isobaric tagging. Nat Methods (2011) 1.87
Post-acquisition ETD spectral processing for increased peptide identifications. J Am Soc Mass Spectrom (2009) 1.86
Phosphoproteomics for the masses. ACS Chem Biol (2010) 1.83
Top-down proteomics on a chromatographic time scale using linear ion trap fourier transform hybrid mass spectrometers. Anal Chem (2007) 1.60
Recommendations for biomarker identification and qualification in clinical proteomics. Sci Transl Med (2010) 1.59
Body fluid proteomics for biomarker discovery: lessons from the past hold the key to success in the future. J Proteome Res (2007) 1.52
Tandem phosphorylation of Ser-911 and Thr-912 at the C terminus of yeast plasma membrane H+-ATPase leads to glucose-dependent activation. J Biol Chem (2007) 1.51
Urinary proteomic biomarkers in coronary artery disease. Mol Cell Proteomics (2007) 1.47
Identification and validation of urinary biomarkers for differential diagnosis and evaluation of therapeutic intervention in anti-neutrophil cytoplasmic antibody-associated vasculitis. Mol Cell Proteomics (2009) 1.41
A proteomics search algorithm specifically designed for high-resolution tandem mass spectra. J Proteome Res (2013) 1.40
Neutron-encoded mass signatures for multiplexed proteome quantification. Nat Methods (2013) 1.39
Tandem mass spectrometry with ultrahigh mass accuracy clarifies peptide identification by database retrieval. J Proteome Res (2009) 1.33
Advancing proteomics with ion/ion chemistry. Biotechniques (2006) 1.29
Peptide and protein quantification using iTRAQ with electron transfer dissociation. J Am Soc Mass Spectrom (2008) 1.29
Large-scale phosphoprotein analysis in Medicago truncatula roots provides insight into in vivo kinase activity in legumes. Plant Physiol (2009) 1.27
Human Pumilio proteins recruit multiple deadenylases to efficiently repress messenger RNAs. J Biol Chem (2012) 1.27
Electrophoretic methods for analysis of urinary polypeptides in IgA-associated renal diseases. Electrophoresis (2007) 1.26
Higher-energy collision-activated dissociation without a dedicated collision cell. Mol Cell Proteomics (2011) 1.26
Over 10,000 peptide identifications from the HeLa proteome by using single-shot capillary zone electrophoresis combined with tandem mass spectrometry. Angew Chem Int Ed Engl (2014) 1.25
Activated-ion electron transfer dissociation improves the ability of electron transfer dissociation to identify peptides in a complex mixture. Anal Chem (2010) 1.22
Analysis of tandem mass spectra by FTMS for improved large-scale proteomics with superior protein quantification. Anal Chem (2010) 1.22
Quantification of mitochondrial acetylation dynamics highlights prominent sites of metabolic regulation. J Biol Chem (2013) 1.20
Capillary electrophoresis-mass spectrometry as a powerful tool in biomarker discovery and clinical diagnosis: an update of recent developments. Mass Spectrom Rev (2009) 1.19
Phosphorylation regulates human OCT4. Proc Natl Acad Sci U S A (2012) 1.19
Infrared photoactivation reduces peptide folding and hydrogen-atom migration following ETD tandem mass spectrometry. Angew Chem Int Ed Engl (2009) 1.17
A quantitative map of the liver mitochondrial phosphoproteome reveals posttranslational control of ketogenesis. Cell Metab (2012) 1.16
A new probabilistic database search algorithm for ETD spectra. J Proteome Res (2009) 1.15
Valence parity renders z(*)-type ions chemically distinct. J Am Chem Soc (2008) 1.15
The human urinary proteome reveals high similarity between kidney aging and chronic kidney disease. Proteomics (2009) 1.11
Implementing photodissociation in an Orbitrap mass spectrometer. J Am Soc Mass Spectrom (2011) 1.09
Peptide quantification using 8-plex isobaric tags and electron transfer dissociation tandem mass spectrometry. Anal Chem (2009) 1.08
Instant spectral assignment for advanced decision tree-driven mass spectrometry. Proc Natl Acad Sci U S A (2012) 1.08
Analysis of the acidic proteome with negative electron-transfer dissociation mass spectrometry. Anal Chem (2012) 1.05
Characterization and diagnostic value of amino acid side chain neutral losses following electron-transfer dissociation. J Am Soc Mass Spectrom (2011) 1.05
Statistical analysis of electron transfer dissociation pairwise fragmentation patterns. Anal Chem (2011) 1.02
Dual electrospray ion source for electron-transfer dissociation on a hybrid linear ion trap-orbitrap mass spectrometer. Anal Chem (2007) 1.01
Infrared multiphoton dissociation of peptide cations in a dual pressure linear ion trap mass spectrometer. Anal Chem (2009) 1.01
Rapid phosphoproteomic and transcriptomic changes in the rhizobia-legume symbiosis. Mol Cell Proteomics (2012) 1.00
RNA-protein analysis using a conditional CRISPR nuclease. Proc Natl Acad Sci U S A (2013) 1.00
Discovery and validation of urinary biomarkers for prostate cancer. Proteomics Clin Appl (2008) 1.00
Comprehensive mass spectrometric mapping of the hydroxylated amino acid residues of the α1(V) collagen chain. J Biol Chem (2012) 0.99
Top-down proteomics reveals novel protein forms expressed in Methanosarcina acetivorans. J Am Soc Mass Spectrom (2009) 0.98
Neutron encoded labeling for peptide identification. Anal Chem (2013) 0.96
Toward defining the phosphoproteome of Xenopus laevis embryos. Dev Dyn (2009) 0.94
Characterization of molecules binding to the 70K N-terminal region of fibronectin by IFAST purification coupled with mass spectrometry. J Proteome Res (2013) 0.93
Sub-part-per-million precursor and product mass accuracy for high-throughput proteomics on an electron transfer dissociation-enabled orbitrap mass spectrometer. Mol Cell Proteomics (2010) 0.92
Amine-reactive neutron-encoded labels for highly plexed proteomic quantitation. Mol Cell Proteomics (2013) 0.92
Cascade dissociations of peptide cation-radicals. Part 1. Scope and effects of amino acid residues in penta-, nona-, and decapeptides. J Am Soc Mass Spectrom (2012) 0.91
Intelligent data acquisition blends targeted and discovery methods. J Proteome Res (2014) 0.90
Global amine and acid functional group modification of proteins. Anal Chem (2008) 0.90
Development of a GC/Quadrupole-Orbitrap mass spectrometer, part II: new approaches for discovery metabolomics. Anal Chem (2014) 0.89
Activated ion ETD performed in a modified collision cell on a hybrid QLT-Oribtrap mass spectrometer. J Am Soc Mass Spectrom (2013) 0.88
Neutron-encoded signatures enable product ion annotation from tandem mass spectra. Mol Cell Proteomics (2013) 0.88
Development and characterization of a GC-enabled QLT-Orbitrap for high-resolution and high-mass accuracy GC/MS. Anal Chem (2010) 0.88
Segmentation of precursor mass range using "tiling" approach increases peptide identifications for MS1-based label-free quantification. Anal Chem (2013) 0.88
Multipurpose dissociation cell for enhanced ETD of intact protein species. J Am Soc Mass Spectrom (2013) 0.87
Neutron-encoded mass signatures for quantitative top-down proteomics. Anal Chem (2014) 0.87
A proteogenomic survey of the Medicago truncatula genome. Mol Cell Proteomics (2012) 0.87
Top-down protein fragmentation by infrared multiphoton dissociation in a dual pressure linear ion trap. Anal Chem (2009) 0.86
Unraveling the histone's potential: a proteomics perspective. Epigenetics (2008) 0.86
Phosphorylation sites of Epstein-Barr virus EBNA1 regulate its function. J Gen Virol (2009) 0.86
Characterization and quantification of intact 26S proteasome proteins by real-time measurement of intrinsic fluorescence prior to top-down mass spectrometry. PLoS One (2013) 0.86
Automated gas-phase purification for accurate, multiplexed quantification on a stand-alone ion-trap mass spectrometer. Anal Chem (2012) 0.85
Medicago PhosphoProtein Database: a repository for Medicago truncatula phosphoprotein data. Front Plant Sci (2012) 0.85
Development of a GC/Quadrupole-Orbitrap mass spectrometer, part I: design and characterization. Anal Chem (2014) 0.85
Chemical derivatization of peptide carboxyl groups for highly efficient electron transfer dissociation. J Am Soc Mass Spectrom (2013) 0.84
Characterizing peptide neutral losses induced by negative electron-transfer dissociation (NETD). J Am Soc Mass Spectrom (2012) 0.84