Published in Biochem Soc Trans on August 01, 2009
The evolution of the phage shock protein response system: interplay between protein function, genomic organization, and system function. Mol Biol Evol (2010) 1.00
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
From qualitative data to quantitative models: analysis of the phage shock protein stress response in Escherichia coli. BMC Syst Biol (2011) 0.79
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
Intestinal pork tapeworm disease mimicking lymphoma on PET/CT imaging. Clin Nucl Med (2014) 1.39
Organization of an activator-bound RNA polymerase holoenzyme. Mol Cell (2008) 1.39
Induction and function of the phage shock protein extracytoplasmic stress response in Escherichia coli. J Biol Chem (2006) 1.37
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
Transcriptional regulation of ethylene receptor and CTR genes involved in ethylene-induced flower opening in cut rose (Rosa hybrida) cv. Samantha. J Exp Bot (2006) 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
Association of serum omentin-1 levels with coronary artery disease. Acta Pharmacol Sin (2011) 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
Herbaspirillum seropedicae signal transduction protein PII is structurally similar to the enteric GlnK. Eur J Biochem (2002) 1.01
Nucleotide-dependent triggering of RNA polymerase-DNA interactions by an AAA regulator of transcription. J Biol Chem (2003) 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
Effects of maternal and embryo characteristics on post-fertilization provisioning in fishes of the genus Gambusia. Oecologia (2005) 0.99
Bayesian design strategies for synthetic biology. Interface Focus (2011) 0.99
Parameter inference for biochemical systems that undergo a Hopf bifurcation. Biophys J (2008) 0.99
Coupling AAA protein function to regulated gene expression. Biochim Biophys Acta (2011) 0.99
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
Omentin inhibits TNF-α-induced expression of adhesion molecules in endothelial cells via ERK/NF-κB pathway. Biochem Biophys Res Commun (2012) 0.96
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
Sex differences of carotid intima-media thickness in healthy children and adolescents. Atherosclerosis (2009) 0.95
Protein-induced DNA bending clarifies the architectural organization of the sigma54-dependent glnAp2 promoter. Mol Microbiol (2006) 0.95
Elucidating the in vivo phosphorylation dynamics of the ERK MAP kinase using quantitative proteomics data and Bayesian model selection. Mol Biosyst (2012) 0.95
Graph spectral analysis of protein interaction network evolution. J R Soc Interface (2012) 0.94
Exogenous ethylene influences flower opening of cut roses (Rosa hybrida) by regulating the genes encoding ethylene biosynthesis enzymes. Sci China C Life Sci (2005) 0.94
Expression of ethylene biosynthetic and receptor genes in rose floral tissues during ethylene-enhanced flower opening. J Exp Bot (2008) 0.94
The distal pocket histidine residue in horse heart myoglobin directs the O-binding mode of nitrite to the heme iron. J Am Chem Soc (2009) 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