PubRank

David R Goodlett

Author PubWeight™ 186.72‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 A type VI secretion system of Pseudomonas aeruginosa targets a toxin to bacteria. Cell Host Microbe 2010 4.98
2 Coordinate regulation of energy transduction modules in Halobacterium sp. analyzed by a global systems approach. Proc Natl Acad Sci U S A 2002 4.96
3 Genetic basis of proteome variation in yeast. Nat Genet 2007 3.04
4 Growth phenotypes of Pseudomonas aeruginosa lasR mutants adapted to the airways of cystic fibrosis patients. Mol Microbiol 2007 2.87
5 Comparison of Francisella tularensis genomes reveals evolutionary events associated with the emergence of human pathogenic strains. Genome Biol 2007 2.68
6 Experimental protein mixture for validating tandem mass spectral analysis. OMICS 2002 2.54
7 The study of macromolecular complexes by quantitative proteomics. Nat Genet 2003 2.44
8 Gene expression analyzed by high-resolution state array analysis and quantitative proteomics: response of yeast to mating pheromone. Mol Cell Proteomics 2004 2.22
9 Pancreatic cancer proteome: the proteins that underlie invasion, metastasis, and immunologic escape. Gastroenterology 2005 2.21
10 Mass spectrometry based targeted protein quantification: methods and applications. J Proteome Res 2009 2.20
11 Lack of in vitro and in vivo recognition of Francisella tularensis subspecies lipopolysaccharide by Toll-like receptors. Infect Immun 2006 2.18
12 Transcription factor Foxp3 and its protein partners form a complex regulatory network. Nat Immunol 2012 2.10
13 A widespread bacterial type VI secretion effector superfamily identified using a heuristic approach. Cell Host Microbe 2012 2.08
14 Genetic variation shapes protein networks mainly through non-transcriptional mechanisms. PLoS Biol 2011 2.08
15 LPS remodeling is an evolved survival strategy for bacteria. Proc Natl Acad Sci U S A 2012 2.05
16 Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean. Anal Chem 2009 1.96
17 Quantitative proteomic analysis of Myc oncoprotein function. EMBO J 2002 1.89
18 A microcapillary trap cartridge-microcapillary high-performance liquid chromatography electrospray ionization emitter device capable of peptide tandem mass spectrometry at the attomole level on an ion trap mass spectrometer with automated routine operation. Rapid Commun Mass Spectrom 2003 1.85
19 Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction. ISME J 2010 1.80
20 The SOX2 response program in glioblastoma multiforme: an integrated ChIP-seq, expression microarray, and microRNA analysis. BMC Genomics 2011 1.79
21 Approaching complete peroxisome characterization by gas-phase fractionation. Electrophoresis 2002 1.78
22 Human Toll-like receptor 4 responses to P. gingivalis are regulated by lipid A 1- and 4'-phosphatase activities. Cell Microbiol 2009 1.66
23 Shotgun collision-induced dissociation of peptides using a time of flight mass analyzer. Proteomics 2003 1.62
24 Pro-CrossLink. Software tool for protein cross-linking and mass spectrometry. Anal Chem 2006 1.61
25 Quantitative proteomics analysis reveals that proteins differentially expressed in chronic pancreatitis are also frequently involved in pancreatic cancer. Mol Cell Proteomics 2007 1.58
26 Chemical cross-linking and mass spectrometry as a low-resolution protein structure determination technique. Anal Chem 2010 1.58
27 A Francisella mutant in lipid A carbohydrate modification elicits protective immunity. PLoS Pathog 2008 1.58
28 Characterization of protein cross-links via mass spectrometry and an open-modification search strategy. Anal Chem 2008 1.56
29 Salivary α-synuclein and DJ-1: potential biomarkers for Parkinson's disease. Brain 2011 1.53
30 Protein identification using top-down. Mol Cell Proteomics 2011 1.50
31 Proteomic analysis of human prostasomes. Prostate 2003 1.45
32 Genome-specific gas-phase fractionation strategy for improved shotgun proteomic profiling of proteotypic peptides. Anal Chem 2008 1.44
33 The application of new software tools to quantitative protein profiling via isotope-coded affinity tag (ICAT) and tandem mass spectrometry: I. Statistically annotated datasets for peptide sequences and proteins identified via the application of ICAT and tandem mass spectrometry to proteins copurifying with T cell lipid rafts. Mol Cell Proteomics 2003 1.42
34 The application of new software tools to quantitative protein profiling via isotope-coded affinity tag (ICAT) and tandem mass spectrometry: II. Evaluation of tandem mass spectrometry methodologies for large-scale protein analysis, and the application of statistical tools for data analysis and interpretation. Mol Cell Proteomics 2003 1.40
35 Quantitative proteomic analysis of age-related changes in human cerebrospinal fluid. Neurobiol Aging 2005 1.39
36 Quantitative proteomic analysis indicates increased synthesis of a quinolone by Pseudomonas aeruginosa isolates from cystic fibrosis airways. Proc Natl Acad Sci U S A 2003 1.39
37 Evidence for the presence of disease-perturbed networks in prostate cancer cells by genomic and proteomic analyses: a systems approach to disease. Cancer Res 2005 1.39
38 Quantitative mass spectrometry reveals a role for the GTPase Rho1p in actin organization on the peroxisome membrane. J Cell Biol 2004 1.38
39 Structural heterogeneity and environmentally regulated remodeling of Francisella tularensis subspecies novicida lipid A characterized by tandem mass spectrometry. J Am Soc Mass Spectrom 2007 1.37
40 Comparison of pancreas juice proteins from cancer versus pancreatitis using quantitative proteomic analysis. Pancreas 2007 1.35
41 A combined dataset of human cerebrospinal fluid proteins identified by multi-dimensional chromatography and tandem mass spectrometry. Proteomics 2007 1.31
42 A Review of Tandem Mass Spectrometry Characterization of Adenosine Diphosphate-Ribosylated Peptides. Int J Mass Spectrom 2011 1.29
43 Rules governing protein identification by mass spectrometry. Rapid Commun Mass Spectrom 2005 1.29
44 Analysis of alpha-synuclein-associated proteins by quantitative proteomics. J Biol Chem 2004 1.27
45 Quantitative proteomic profiling of pancreatic cancer juice. Proteomics 2006 1.25
46 Increasing information from shotgun proteomic data by accounting for misassigned precursor ion masses. Proteomics 2008 1.23
47 Multiplexed and data-independent tandem mass spectrometry for global proteome profiling. Mass Spectrom Rev 2013 1.23
48 xComb: a cross-linked peptide database approach to protein-protein interaction analysis. J Proteome Res 2010 1.22
49 Genetically distinct pathways guide effector export through the type VI secretion system. Mol Microbiol 2014 1.20
50 Determination of pyrophosphorylated forms of lipid A in Gram-negative bacteria using a multivaried mass spectrometric approach. Proc Natl Acad Sci U S A 2008 1.18
51 Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics. Mol Cell Proteomics 2007 1.18
52 MglA regulates Francisella tularensis subsp. novicida (Francisella novicida) response to starvation and oxidative stress. J Bacteriol 2007 1.17
53 On the benefits of acquiring peptide fragment ions at high measured mass accuracy. J Am Soc Mass Spectrom 2008 1.17
54 Mining the acute respiratory distress syndrome proteome: identification of the insulin-like growth factor (IGF)/IGF-binding protein-3 pathway in acute lung injury. Am J Pathol 2006 1.16
55 Identification of the interactions between cytochrome P450 2E1 and cytochrome b5 by mass spectrometry and site-directed mutagenesis. J Biol Chem 2006 1.15
56 Proteomic analysis of an extreme halophilic archaeon, Halobacterium sp. NRC-1. Mol Cell Proteomics 2003 1.15
57 Improving mass and liquid chromatography based identification of proteins using bayesian scoring. J Proteome Res 2005 1.14
58 Precursor ion independent algorithm for top-down shotgun proteomics. J Am Soc Mass Spectrom 2009 1.14
59 Stromal mesenchyme cell genes of the human prostate and bladder. BMC Urol 2005 1.13
60 Initial proteome analysis of model microorganism Haemophilus influenzae strain Rd KW20. J Bacteriol 2003 1.13
61 Mapping PARP-1 auto-ADP-ribosylation sites by liquid chromatography-tandem mass spectrometry. J Proteome Res 2013 1.11
62 Faster, quantitative, and accurate precursor acquisition independent from ion count. Anal Chem 2011 1.11
63 Quantitative proteomic analysis of proteins released by neoplastic prostate epithelium. Cancer Res 2004 1.09
64 Detecting cross-linked peptides by searching against a database of cross-linked peptide pairs. J Proteome Res 2010 1.09
65 System-based proteomic analysis of the interferon response in human liver cells. Genome Biol 2004 1.09
66 Identification and type III-dependent secretion of the Yersinia pestis insecticidal-like proteins. Mol Microbiol 2007 1.09
67 Interactions between CusF and CusB identified by NMR spectroscopy and chemical cross-linking coupled to mass spectrometry. Biochemistry 2011 1.08
68 Plasticity of cytochrome P450 2B4 as investigated by hydrogen-deuterium exchange mass spectrometry and X-ray crystallography. J Biol Chem 2010 1.08
69 Quantitative proteomics investigation of pancreatic intraepithelial neoplasia. Electrophoresis 2009 1.08
70 Quantitative proteomic analysis of chromatin-associated factors. J Am Soc Mass Spectrom 2003 1.06
71 Multiplex targeted proteomic assay for biomarker detection in plasma: a pancreatic cancer biomarker case study. J Proteome Res 2012 1.06
72 Dynamic changes in the subcellular distribution of Gpd1p in response to cell stress. J Biol Chem 2009 1.04
73 Transferrin receptor-dependent cytotoxicity of artemisinin-transferrin conjugates on prostate cancer cells and induction of apoptosis. Cancer Lett 2008 1.04
74 DJ-1 isoforms in whole blood as potential biomarkers of Parkinson disease. Sci Rep 2012 1.02
75 Comparison of a label-free quantitative proteomic method based on peptide ion current area to the isotope coded affinity tag method. Cancer Inform 2008 1.02
76 Proteomic analysis of the intestinal epithelial cell response to enteropathogenic Escherichia coli. J Biol Chem 2004 1.02
77 Identification of a novel phosphorylation site, Ser-170, as a regulator of bad pro-apoptotic activity. J Biol Chem 2001 1.02
78 VgrG-5 is a Burkholderia type VI secretion system-exported protein required for multinucleated giant cell formation and virulence. Infect Immun 2014 1.01
79 Large-scale evaluation of quantitative reproducibility and proteome coverage using acid cleavable isotope coded affinity tag mass spectrometry for proteomic profiling. Proteomics 2005 1.00
80 Mitochondrial dysfunction in NnaD mutant flies and Purkinje cell degeneration mice reveals a role for Nna proteins in neuronal bioenergetics. Neuron 2010 1.00
81 Diatom proteomics reveals unique acclimation strategies to mitigate Fe limitation. PLoS One 2013 0.99
82 Increased quantitative proteome coverage with (13)C/(12)C-based, acid-cleavable isotope-coded affinity tag reagent and modified data acquisition scheme. Proteomics 2005 0.99
83 Proteomic identification of potential susceptibility factors in drug-induced liver disease. Chem Res Toxicol 2005 0.98
84 Exploration of the normal human bronchoalveolar lavage fluid proteome. Proteomics Clin Appl 2008 0.98
85 Deciphering diatom biochemical pathways via whole-cell proteomics. Aquat Microb Ecol 2009 0.98
86 The Proteome Folding Project: proteome-scale prediction of structure and function. Genome Res 2011 0.98
87 Effect of artemisinin derivatives on apoptosis and cell cycle in prostate cancer cells. Anticancer Drugs 2010 0.97
88 Data-independent proteomic screen identifies novel tamoxifen agonist that mediates drug resistance. J Proteome Res 2011 0.97
89 Identification of the active site of DS-epimerase 1 and requirement of N-glycosylation for enzyme function. J Biol Chem 2008 0.96
90 New structural proteins of Halobacterium salinarum gas vesicle revealed by comparative proteomics analysis. J Proteome Res 2011 0.96
91 Proteins That Underlie Neoplastic Progression of Ulcerative Colitis. Proteomics Clin Appl 2009 0.96
92 Advances in proteomic prostate cancer biomarker discovery. J Proteomics 2010 0.96
93 Cross-linking mass spectrometry and mutagenesis confirm the functional importance of surface interactions between CYP3A4 and holo/apo cytochrome b(5). Biochemistry 2012 0.95
94 Proteomic classification of acute leukemias by alignment-based quantitation of LC-MS/MS data sets. J Proteome Res 2012 0.95
95 Identification and characterization of biomarkers of organophosphorus exposures in humans. Adv Exp Med Biol 2010 0.94
96 Proteomic analysis of Pseudomonas aeruginosa grown under magnesium limitation. J Am Soc Mass Spectrom 2003 0.94
97 Surface acoustic wave nebulization produces ions with lower internal energy than electrospray ionization. J Am Soc Mass Spectrom 2012 0.94
98 Proteomic biomarker discovery in cerebrospinal fluid for neurodegenerative diseases. J Alzheimers Dis 2005 0.93
99 Interactions of the transmembrane polymeric rings of the Salmonella enterica serovar Typhimurium type III secretion system. MBio 2010 0.93
100 Comparison of a Salmonella typhimurium proteome defined by shotgun proteomics directly on an LTQ-FT and by proteome pre-fractionation on an LCQ-DUO. Brief Funct Genomic Proteomic 2006 0.93
101 Comprehensive structure characterization of lipid A extracted from Yersinia pestis for determination of its phosphorylation configuration. J Am Soc Mass Spectrom 2010 0.92
102 Shotgun proteomics implicates extracellular matrix proteins and protease systems in neuronal development induced by astrocyte cholinergic stimulation. J Neurochem 2008 0.92
103 Tandem mass spectrometry investigation of ADP-ribosylated kemptide. J Am Soc Mass Spectrom 2008 0.92
104 Salivary tau species are potential biomarkers of Alzheimer's disease. J Alzheimers Dis 2011 0.91
105 Sulfur oxidizers dominate carbon fixation at a biogeochemical hot spot in the dark ocean. ISME J 2013 0.91
106 Characterization of proteome of human cerebrospinal fluid. Int Rev Neurobiol 2006 0.91
107 Landscape of the SOX2 protein-protein interactome. Proteomics 2011 0.91
108 Electron capture in spin-trap capped peptides. An experimental example of ergodic dissociation in peptide cation-radicals. J Am Soc Mass Spectrom 2006 0.90
109 Induced sputum proteome in healthy subjects and asthmatic patients. J Allergy Clin Immunol 2011 0.90
110 Surface acoustic wave nebulization of peptides as a microfluidic interface for mass spectrometry. Anal Chem 2010 0.89
111 Urinary proteomics evaluation in interstitial cystitis/painful bladder syndrome: a pilot study. Int Braz J Urol 2010 0.89
112 Global analysis of condition-specific subcellular protein distribution and abundance. Mol Cell Proteomics 2013 0.89
113 Substrate specificity and ligand interactions of CYP26A1, the human liver retinoic acid hydroxylase. Mol Pharmacol 2011 0.89
114 Surface acoustic wave nebulization facilitating lipid mass spectrometric analysis. Anal Chem 2012 0.88
115 An six-amino acid motif in the alpha3 domain of MICA is the cancer therapeutic target to inhibit shedding. Biochem Biophys Res Commun 2009 0.88
116 Quantitative mass spectrometry analysis using PAcIFIC for the identification of plasma diagnostic biomarkers for abdominal aortic aneurysm. PLoS One 2011 0.88
117 Quantitative glycoproteomics analysis reveals changes in N-glycosylation level associated with pancreatic ductal adenocarcinoma. J Proteome Res 2014 0.87
118 Evaluation of P450 inhibition and induction by artemisinin antimalarials in human liver microsomes and primary human hepatocytes. Drug Metab Dispos 2012 0.87
119 Acquisition of iron by alkaliphilic bacillus species. Appl Environ Microbiol 2010 0.87
120 Proteomic profiling of bronchoalveolar lavage fluid in critically ill patients with ventilator-associated pneumonia. PLoS One 2013 0.86
121 Proteomic approach to studying Parkinson's disease. Mol Neurobiol 2004 0.86
122 Proteomics on Fixed Tissue Specimens - A Review. Curr Proteomics 2009 0.86
123 Automated lipid A structure assignment from hierarchical tandem mass spectrometry data. J Am Soc Mass Spectrom 2011 0.86
124 WaveletQuant, an improved quantification software based on wavelet signal threshold de-noising for labeled quantitative proteomic analysis. BMC Bioinformatics 2010 0.86
125 Bioengineering radioresistance by overproduction of RPA, a mammalian-type single-stranded DNA-binding protein, in a halophilic archaeon. Appl Microbiol Biotechnol 2013 0.86
126 Lipid raft proteins and their identification in T lymphocytes. Subcell Biochem 2004 0.85
127 Identification, cloning, expression, and purification of Francisella lpp3: an immunogenic lipoprotein. Microbiol Res 2009 0.85
128 A divergent Pseudomonas aeruginosa palmitoyltransferase essential for cystic fibrosis-specific lipid A. Mol Microbiol 2013 0.85
129 Comparison of data acquisition strategies on quadrupole ion trap instrumentation for shotgun proteomics. J Am Soc Mass Spectrom 2014 0.84
130 Shotgun proteomic analysis of a chromatophore-enriched preparation from the purple phototrophic bacterium Rhodopseudomonas palustris. Photosynth Res 2003 0.84
131 Proteome analysis of Halobacterium sp. NRC-1 facilitated by the biomodule analysis tool BMSorter. Mol Cell Proteomics 2006 0.84
132 Chemical cross-linking, mass spectrometry, and in silico modeling of proteasomal 20S core particles of the haloarchaeon Haloferax volcanii. Proteomics 2012 0.84
133 Identification of secreted glycoproteins of human prostate and bladder stromal cells by comparative quantitative proteomics. Prostate 2009 0.83
134 Sequence assignment of ADP-ribosylated peptides is facilitated as peptide length increases. Rapid Commun Mass Spectrom 2010 0.83
135 Molecular and biological characterization of Streptococcal SpyA-mediated ADP-ribosylation of intermediate filament protein vimentin. J Biol Chem 2012 0.83
136 Identification of phosphorylation sites using microimmobilized metal affinity chromatography. Methods Enzymol 2005 0.83
137 Systematic investigation of lycopene effects in LNCaP cells by use of novel large-scale proteomic analysis software. Proteomics Clin Appl 2007 0.83
138 A pseudo-atomic model for the capsid shell of bacteriophage lambda using chemical cross-linking/mass spectrometry and molecular modeling. J Mol Biol 2013 0.83
139 On the relevance of peptide sequence permutations in shotgun proteomics studies. J Proteome Res 2011 0.83
140 Urinary proteome analysis of irritable bowel syndrome (IBS) symptom subgroups. J Proteome Res 2012 0.82
141 A Qit-q-Tof mass spectrometer for two-dimensional tandem mass spectrometry. Rapid Commun Mass Spectrom 2007 0.82
142 Optimization of reversed-phase microcapillary liquid chromatography for quantitative proteomics. J Chromatogr B Analyt Technol Biomed Life Sci 2004 0.81
143 Shotgun MS proteomic analysis of bronchoalveolar lavage fluid in normal subjects. Proteomics Clin Appl 2014 0.81
144 Minimize the detection of false positives by the software program DetectShift for 18O-labeled cross-linked peptide analysis. Eur J Mass Spectrom (Chichester, Eng) 2008 0.81
145 Metabolic capabilities and systems fluctuations in Haloarcula marismortui revealed by integrative genomics and proteomics analyses. J Proteome Res 2011 0.78
146 Characterization of microsomal fraction proteome in human lymphoblasts reveals the down-regulation of galectin-1 by interleukin-12. Proteomics 2005 0.78
147 Effects of transferrin conjugates of artemisinin and artemisinin dimer on breast cancer cell lines. Anticancer Res 2013 0.78
148 RACK1 associates with muscarinic receptors and regulates M(2) receptor trafficking. PLoS One 2010 0.78
149 Covalent modification and time-dependent inhibition of human CYP2E1 by the meta-isomer of acetaminophen. Drug Metab Dispos 2012 0.77
150 Identifying and tracking proteins through the marine water column: insights into the inputs and preservation mechanisms of protein in sediments. Geochim Cosmochim Acta 2012 0.77
151 A statistical approach to peptide identification from clustered tandem mass spectrometry data. Proceedings (IEEE Int Conf Bioinformatics Biomed) 2012 0.76
152 Identification and characterization of a drug-sensitive strain enables puromycin-based translational assays in Saccharomyces cerevisiae. Yeast 2014 0.76
153 Preparation and Use of an Integrated Microcapillary HPLC Column and ESI Device for Proteomic Analysis. CSH Protoc 2007 0.76
154 Proteomic landscape of bronchoalveolar lavage fluid in human immunodeficiency virus infection. Am J Physiol Lung Cell Mol Physiol 2013 0.76
155 Determination and comparison of the Francisella tularensis subsp.novicida U112 proteome to other bacterial proteomes. J Proteome Res 2008 0.76
156 Protein structure modeling. Methods Mol Biol 2010 0.75
157 Analysis of Phosphopeptides by {micro}LC-ESI-MS/MS. CSH Protoc 2007 0.75
158 Large precursor tolerance database search - a simple approach for estimation of the amount of spectra with precursor mass shifts in proteomic data. J Proteomics 2013 0.75
159 On the use of hydrogen/deuterium exchange mass spectrometry data to improve de novo protein structure prediction. Rapid Commun Mass Spectrom 2009 0.75
160 Offline Micro-IMAC Enrichment of Phosphoproteins. CSH Protoc 2007 0.75
161 Quantitative protein profile comparisons using the isotope-coded affinity tag method. Curr Protoc Protein Sci 2004 0.75