Published in J Biol Chem on May 17, 2006
Global analysis of extracytoplasmic stress signaling in Escherichia coli. PLoS Genet (2009) 1.69
Genetic analysis of factors affecting susceptibility of Bacillus subtilis to daptomycin. Antimicrob Agents Chemother (2009) 1.67
An integrated network approach identifies the isobutanol response network of Escherichia coli. Mol Syst Biol (2009) 1.66
Contact-dependent growth inhibition causes reversible metabolic downregulation in Escherichia coli. J Bacteriol (2009) 1.64
Probing regulon of ArcA in Shewanella oneidensis MR-1 by integrated genomic analyses. BMC Genomics (2008) 1.38
In vivo localizations of membrane stress controllers PspA and PspG in Escherichia coli. Mol Microbiol (2009) 1.17
Global transcriptional, physiological, and metabolite analyses of the responses of Desulfovibrio vulgaris hildenborough to salt adaptation. Appl Environ Microbiol (2009) 1.10
Essential role of VIPP1 in chloroplast envelope maintenance in Arabidopsis. Plant Cell (2012) 1.04
A lower-order oligomer form of phage shock protein A (PspA) stably associates with the hexameric AAA(+) transcription activator protein PspF for negative regulation. J Mol Biol (2009) 1.04
The evolution of the phage shock protein response system: interplay between protein function, genomic organization, and system function. Mol Biol Evol (2010) 1.00
Regulation Systems of Bacteria such as Escherichia coli in Response to Nutrient Limitation and Environmental Stresses. Metabolites (2013) 0.99
Properties of the phage-shock-protein (Psp) regulatory complex that govern signal transduction and induction of the Psp response in Escherichia coli. Microbiology (2010) 0.97
NADH availability limits asymmetric biocatalytic epoxidation in a growing recombinant Escherichia coli strain. Appl Environ Microbiol (2008) 0.96
Analysis of the Yersinia enterocolitica PspBC proteins defines functional domains, essential amino acids and new roles within the phage-shock-protein response. Mol Microbiol (2009) 0.94
Physical, functional and conditional interactions between ArcAB and phage shock proteins upon secretin-induced stress in Escherichia coli. Mol Microbiol (2009) 0.92
Association of a protective monoclonal IgA with the O antigen of Salmonella enterica serovar Typhimurium impacts type 3 secretion and outer membrane integrity. Infect Immun (2012) 0.91
Transient suppression of Shigella flexneri type 3 secretion by a protective O-antigen-specific monoclonal IgA. MBio (2011) 0.91
Transcriptional regulation of main metabolic pathways of cyoA, cydB, fnr, and fur gene knockout Escherichia coli in C-limited and N-limited aerobic continuous cultures. Microb Cell Fact (2011) 0.90
Comparison of strand-specific transcriptomes of enterohemorrhagic Escherichia coli O157:H7 EDL933 (EHEC) under eleven different environmental conditions including radish sprouts and cattle feces. BMC Genomics (2014) 0.89
Phage shock proteins B and C prevent lethal cytoplasmic membrane permeability in Yersinia enterocolitica. Mol Microbiol (2012) 0.89
New functions for the ancient DedA membrane protein family. J Bacteriol (2012) 0.89
Role of filamentous phage SW1 in regulating the lateral flagella of Shewanella piezotolerans strain WP3 at low temperatures. Appl Environ Microbiol (2013) 0.87
The Hyb hydrogenase permits hydrogen-dependent respiratory growth of Salmonella enterica serovar Typhimurium. MBio (2010) 0.87
Regulation of transcription by 6S RNAs: insights from the Escherichia coli and Bacillus subtilis model systems. RNA Biol (2014) 0.85
Multiple envelope stress response pathways are activated in an Escherichia coli strain with mutations in two members of the DedA membrane protein family. J Bacteriol (2012) 0.84
Dissipation of proton motive force is not sufficient to induce the phage shock protein response in Escherichia coli. Curr Microbiol (2011) 0.83
Biochemical and Genetic Characterization of PspE and GlpE, Two Single-domain Sulfurtransferases of Escherichia coli. Open Microbiol J (2008) 0.83
The transcriptional heat shock response of Salmonella typhimurium shows hysteresis and heated cells show increased resistance to heat and acid stress. PLoS One (2012) 0.81
A transcriptional "Scream" early response of E. coli prey to predatory invasion by Bdellovibrio. Curr Microbiol (2009) 0.81
Response of Acidithiobacillus caldus toward suboptimal pH conditions. Extremophiles (2013) 0.80
Hypothesis: type I toxin-antitoxin genes enter the persistence field-a feedback mechanism explaining membrane homoeostasis. Philos Trans R Soc Lond B Biol Sci (2016) 0.80
Roles of H2 uptake hydrogenases in Shigella flexneri acid tolerance. Microbiology (2012) 0.79
Global transcriptional responses to the bacteriocin colicin M in Escherichia coli. BMC Microbiol (2013) 0.79
From qualitative data to quantitative models: analysis of the phage shock protein stress response in Escherichia coli. BMC Syst Biol (2011) 0.79
Virulence increasing of Salmonella typhimurium in Balb/c mice after heat-stress induction of phage shock protein A. Curr Microbiol (2009) 0.78
Novel proteomic tools reveal essential roles of SRP and importance of proper membrane protein biogenesis. Mol Cell Proteomics (2011) 0.77
Phage shock protein G, a novel ethanol-induced stress protein in Salmonella typhimurium. Curr Microbiol (2008) 0.76
The Escherichia coli O157:H7 cattle immunoproteome includes outer membrane protein A (OmpA), a modulator of adherence to bovine rectoanal junction squamous epithelial (RSE) cells. Proteomics (2015) 0.75
Development of a Novel Plasmid-Free Thymidine Producer by Reprogramming Nucleotide Metabolic Pathways. Appl Environ Microbiol (2015) 0.75
Environmental Regulation of Yersinia Pathophysiology. Front Cell Infect Microbiol (2016) 0.75
Global Gene-expression Analysis of the Response of Salmonella Enteritidis to Egg White Exposure Reveals Multiple Egg White-imposed Stress Responses. Front Microbiol (2017) 0.75
Strand-specific transcriptomes of Enterohemorrhagic Escherichia coli in response to interactions with ground beef microbiota: interactions between microorganisms in raw meat. BMC Genomics (2017) 0.75
Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems. J R Soc Interface (2009) 6.08
Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature (2009) 5.90
Balancing selection at the prion protein gene consistent with prehistoric kurulike epidemics. Science (2003) 3.59
Randomized, double-blind, placebo-controlled phase II study of AMG 386 combined with weekly paclitaxel in patients with recurrent ovarian cancer. J Clin Oncol (2011) 2.62
Simulation-based model selection for dynamical systems in systems and population biology. Bioinformatics (2009) 2.27
Engineering modular and orthogonal genetic logic gates for robust digital-like synthetic biology. Nat Commun (2011) 2.06
Structural insights into the activity of enhancer-binding proteins. Science (2005) 2.04
Network motifs: structure does not determine function. BMC Genomics (2006) 2.01
A Y chromosome census of the British Isles. Curr Biol (2003) 1.84
ABC-SysBio--approximate Bayesian computation in Python with GPU support. Bioinformatics (2010) 1.76
Gaussian process regression bootstrapping: exploring the effects of uncertainty in time course data. Bioinformatics (2009) 1.68
Managing membrane stress: the phage shock protein (Psp) response, from molecular mechanisms to physiology. FEMS Microbiol Rev (2010) 1.65
Modus operandi of the bacterial RNA polymerase containing the sigma54 promoter-specificity factor. Mol Microbiol (2008) 1.56
Mechanism of action of the Escherichia coli phage shock protein PspA in repression of the AAA family transcription factor PspF. J Mol Biol (2002) 1.48
Perturbation of fetal liver hematopoietic stem and progenitor cell development by trisomy 21. Proc Natl Acad Sci U S A (2012) 1.46
The ATP hydrolyzing transcription activator phage shock protein F of Escherichia coli: identifying a surface that binds sigma 54. Proc Natl Acad Sci U S A (2003) 1.45
Maximizing the information content of experiments in systems biology. PLoS Comput Biol (2013) 1.43
Sensitivity, robustness, and identifiability in stochastic chemical kinetics models. Proc Natl Acad Sci U S A (2011) 1.43
Structural basis of the nucleotide driven conformational changes in the AAA+ domain of transcription activator PspF. J Mol Biol (2006) 1.40
Organization of an activator-bound RNA polymerase holoenzyme. Mol Cell (2008) 1.39
Structures and organisation of AAA+ enhancer binding proteins in transcriptional activation. J Struct Biol (2006) 1.36
The effects of incomplete protein interaction data on structural and evolutionary inferences. BMC Biol (2006) 1.36
Practical limits for reverse engineering of dynamical systems: a statistical analysis of sensitivity and parameter inferability in systems biology models. Mol Biosyst (2011) 1.35
Model selection in systems and synthetic biology. Curr Opin Biotechnol (2013) 1.30
Identification of a new member of the phage shock protein response in Escherichia coli, the phage shock protein G (PspG). J Biol Chem (2004) 1.25
The ABC of reverse engineering biological signalling systems. Mol Biosyst (2009) 1.24
Haplotype diversity and the block structure of linkage disequilibrium. Trends Genet (2002) 1.23
Comparative analysis of the Saccharomyces cerevisiae and Caenorhabditis elegans protein interaction networks. BMC Evol Biol (2005) 1.23
Statistical inference of the time-varying structure of gene-regulation networks. BMC Syst Biol (2010) 1.22
Complex networks and simple models in biology. J R Soc Interface (2005) 1.19
Decomposing noise in biochemical signaling systems highlights the role of protein degradation. Biophys J (2013) 1.18
In vivo localizations of membrane stress controllers PspA and PspG in Escherichia coli. Mol Microbiol (2009) 1.17
An intramolecular route for coupling ATPase activity in AAA+ proteins for transcription activation. J Biol Chem (2008) 1.16
Organization of the AAA(+) adaptor protein PspA is an oligomeric ring. J Biol Chem (2003) 1.16
GPU accelerated biochemical network simulation. Bioinformatics (2011) 1.15
Heterogeneous nucleotide occupancy stimulates functionality of phage shock protein F, an AAA+ transcriptional activator. J Biol Chem (2006) 1.14
ATP-dependent transcriptional activation by bacterial PspF AAA+protein. J Mol Biol (2004) 1.13
A general moment expansion method for stochastic kinetic models. J Chem Phys (2013) 1.13
Coupling nucleotide hydrolysis to transcription activation performance in a bacterial enhancer binding protein. Mol Microbiol (2007) 1.11
Gene expression profiles of Blumeria graminis indicate dynamic changes to primary metabolism during development of an obligate biotrophic pathogen. Plant Cell (2005) 1.11
Evidence for an apartheid-like social structure in early Anglo-Saxon England. Proc Biol Sci (2006) 1.10
Regulation of the co-evolved HrpR and HrpS AAA+ proteins required for Pseudomonas syringae pathogenicity. Nat Commun (2011) 1.09
Secretion defects that activate the phage shock response of Escherichia coli. J Bacteriol (2003) 1.09
A prehydrolysis state of an AAA+ ATPase supports transcription activation of an enhancer-dependent RNA polymerase. Proc Natl Acad Sci U S A (2010) 1.08
A likelihood approach to analysis of network data. Proc Natl Acad Sci U S A (2006) 1.07
Molecular determinants for PspA-mediated repression of the AAA transcriptional activator PspF. J Bacteriol (2005) 1.07
Bayesian design of synthetic biological systems. Proc Natl Acad Sci U S A (2011) 1.05
Mapping sigma 54-RNA polymerase interactions at the -24 consensus promoter element. J Biol Chem (2003) 1.04
A lower-order oligomer form of phage shock protein A (PspA) stably associates with the hexameric AAA(+) transcription activator protein PspF for negative regulation. J Mol Biol (2009) 1.04
Localized breakdown in linkage disequilibrium does not always predict sperm crossover hot spots in the human MHC class II region. Genomics (2005) 1.03
HIV and the CCR5-Delta32 resistance allele. FEMS Microbiol Lett (2004) 1.02
Enhancer-dependent transcription by bacterial RNA polymerase: the beta subunit downstream lobe is used by sigma 54 during open promoter complex formation. Methods Enzymol (2003) 1.02
Nucleotide-dependent triggering of RNA polymerase-DNA interactions by an AAA regulator of transcription. J Biol Chem (2003) 1.01
Herbaspirillum seropedicae signal transduction protein PII is structurally similar to the enteric GlnK. Eur J Biochem (2002) 1.01
The role of the conserved phenylalanine in the sigma54-interacting GAFTGA motif of bacterial enhancer binding proteins. Nucleic Acids Res (2009) 1.00
Interplay between CRP-cAMP and PII-Ntr systems forms novel regulatory network between carbon metabolism and nitrogen assimilation in Escherichia coli. Nucleic Acids Res (2007) 1.00
Designing attractive models via automated identification of chaotic and oscillatory dynamical regimes. Nat Commun (2011) 1.00
Nonidentifiability of the source of intrinsic noise in gene expression from single-burst data. PLoS Comput Biol (2008) 0.99
Parameter inference for biochemical systems that undergo a Hopf bifurcation. Biophys J (2008) 0.99
Bayesian design strategies for synthetic biology. Interface Focus (2011) 0.99
Coupling AAA protein function to regulated gene expression. Biochim Biophys Acta (2011) 0.99
T-lymphocyte invasiveness: control by voltage-gated Na+ channel activity. FEBS Lett (2004) 0.98
Reorganisation of an RNA polymerase-promoter DNA complex for DNA melting. EMBO J (2004) 0.98
Protein-DNA interactions that govern AAA+ activator-dependent bacterial transcription initiation. J Mol Biol (2007) 0.98
Customizing cell signaling using engineered genetic logic circuits. Trends Microbiol (2012) 0.97
A role for the conserved GAFTGA motif of AAA+ transcription activators in sensing promoter DNA conformation. J Biol Chem (2006) 0.97
Engineered interfaces of an AAA+ ATPase reveal a new nucleotide-dependent coordination mechanism. J Biol Chem (2010) 0.97
Properties of the phage-shock-protein (Psp) regulatory complex that govern signal transduction and induction of the Psp response in Escherichia coli. Microbiology (2010) 0.97
Cellular compartments cause multistability and allow cells to process more information. Biophys J (2013) 0.97
Regulated communication between the upstream face of RNA polymerase and the beta' subunit jaw domain. EMBO J (2004) 0.96
Mechanism of homotropic control to coordinate hydrolysis in a hexameric AAA+ ring ATPase. J Mol Biol (2008) 0.96
Elucidating the in vivo phosphorylation dynamics of the ERK MAP kinase using quantitative proteomics data and Bayesian model selection. Mol Biosyst (2012) 0.95
Protein-induced DNA bending clarifies the architectural organization of the sigma54-dependent glnAp2 promoter. Mol Microbiol (2006) 0.95
Sex differences of carotid intima-media thickness in healthy children and adolescents. Atherosclerosis (2009) 0.95
Graph spectral analysis of protein interaction network evolution. J R Soc Interface (2012) 0.94
Activity map of the Escherichia coli RNA polymerase bridge helix. J Biol Chem (2011) 0.94
Optimizing threshold-schedules for sequential approximate Bayesian computation: applications to molecular systems. Stat Appl Genet Mol Biol (2013) 0.93
ATPase site architecture is required for self-assembly and remodeling activity of a hexameric AAA+ transcriptional activator. Mol Cell (2012) 0.93
Stable DNA opening within open promoter complexes is mediated by the RNA polymerase beta'-jaw domain. J Biol Chem (2005) 0.92
Physical, functional and conditional interactions between ArcAB and phage shock proteins upon secretin-induced stress in Escherichia coli. Mol Microbiol (2009) 0.92
Coupling sigma factor conformation to RNA polymerase reorganisation for DNA melting. J Mol Biol (2009) 0.92
Generating confidence intervals on biological networks. BMC Bioinformatics (2007) 0.91
Proteasome isoforms exhibit only quantitative differences in cleavage and epitope generation. Eur J Immunol (2014) 0.91
Plasma proteome analysis in HTLV-1-associated myelopathy/tropical spastic paraparesis. Retrovirology (2011) 0.91
On optimality of kernels for approximate Bayesian computation using sequential Monte Carlo. Stat Appl Genet Mol Biol (2013) 0.91
Communication between Esigma(54) , promoter DNA and the conserved threonine residue in the GAFTGA motif of the PspF sigma-dependent activator during transcription activation. Mol Microbiol (2004) 0.90
A modular cell-based biosensor using engineered genetic logic circuits to detect and integrate multiple environmental signals. Biosens Bioelectron (2012) 0.89
Domain movements of the enhancer-dependent sigma factor drive DNA delivery into the RNA polymerase active site: insights from single molecule studies. Nucleic Acids Res (2014) 0.89
Multiple roles of the RNA polymerase beta subunit flap domain in sigma 54-dependent transcription. J Biol Chem (2002) 0.88
Mapping ATP-dependent activation at a sigma54 promoter. J Biol Chem (2006) 0.88
Parameter-free model discrimination criterion based on steady-state coplanarity. Proc Natl Acad Sci U S A (2012) 0.88
Gastric adenocarcinoma presenting as uterine metastasis--a case report. Gynecol Oncol (2005) 0.87
IHF-binding sites inhibit DNA loop formation and transcription initiation. Nucleic Acids Res (2009) 0.87
Nitrogen and carbon status are integrated at the transcriptional level by the nitrogen regulator NtrC in vivo. MBio (2013) 0.87