Published in Proc Natl Acad Sci U S A on June 20, 2000
Intrinsic noise in gene regulatory networks. Proc Natl Acad Sci U S A (2001) 12.06
Functional roles for noise in genetic circuits. Nature (2010) 6.96
Stochastic modelling for quantitative description of heterogeneous biological systems. Nat Rev Genet (2009) 3.27
What is stochastic resonance? Definitions, misconceptions, debates, and its relevance to biology. PLoS Comput Biol (2009) 2.98
Induced fit, conformational selection and independent dynamic segments: an extended view of binding events. Trends Biochem Sci (2010) 2.97
Stochastic gene expression as a many-body problem. Proc Natl Acad Sci U S A (2003) 2.94
Attenuation of noise in ultrasensitive signaling cascades. Biophys J (2002) 2.42
Non-genetic heterogeneity from stochastic partitioning at cell division. Nat Genet (2010) 2.32
Multileveled selection on plasmid replication. Genetics (2002) 2.08
Near-critical phenomena in intracellular metabolite pools. Biophys J (2003) 1.92
Cell-cycle dependence of transcription dominates noise in gene expression. PLoS Comput Biol (2013) 1.87
Pattern, growth, and control. Cell (2011) 1.85
Stochastic reaction-diffusion kinetics in the microscopic limit. Proc Natl Acad Sci U S A (2010) 1.85
Dynamic heterogeneity and DNA methylation in embryonic stem cells. Mol Cell (2014) 1.80
Fluctuations and quality of control in biological cells: zero-order ultrasensitivity reinvestigated. Biophys J (2000) 1.75
Triggering the all-or-nothing switch into mitosis. Trends Cell Biol (2001) 1.68
Analysis of pattern precision shows that Drosophila segmentation develops substantial independence from gradients of maternal gene products. Dev Dyn (2006) 1.68
Self-consistent proteomic field theory of stochastic gene switches. Biophys J (2004) 1.47
Single TNFalpha trimers mediating NF-kappaB activation: stochastic robustness of NF-kappaB signaling. BMC Bioinformatics (2007) 1.44
Noise contributions in an inducible genetic switch: a whole-cell simulation study. PLoS Comput Biol (2011) 1.44
A reduced model clarifies the role of feedback loops and time delays in the Drosophila circadian oscillator. Biophys J (2002) 1.39
Increased noise as an effect of haploinsufficiency of the tumor-suppressor gene neurofibromatosis type 1 in vitro. Proc Natl Acad Sci U S A (2002) 1.36
Signaling in small subcellular volumes. I. Stochastic and diffusion effects on individual pathways. Biophys J (2004) 1.36
URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries. BMC Syst Biol (2012) 1.35
Emergence of bimodal cell population responses from the interplay between analog single-cell signaling and protein expression noise. BMC Syst Biol (2012) 1.25
Dynamical principles of two-component genetic oscillators. PLoS Comput Biol (2006) 1.24
Fluctuations in repressor control: thermodynamic constraints on stochastic focusing. Biophys J (2000) 1.24
Analysis of omics data with genome-scale models of metabolism. Mol Biosyst (2012) 1.24
Counter-intuitive stochastic behavior of simple gene circuits with negative feedback. Biophys J (2010) 1.22
Gene expression noise in spatial patterning: hunchback promoter structure affects noise amplitude and distribution in Drosophila segmentation. PLoS Comput Biol (2011) 1.21
A stochastic spectral analysis of transcriptional regulatory cascades. Proc Natl Acad Sci U S A (2009) 1.19
Deterministic characterization of stochastic genetic circuits. Proc Natl Acad Sci U S A (2007) 1.15
Master equation simulation analysis of immunostained Bicoid morphogen gradient. BMC Syst Biol (2007) 1.15
Noise reduction by diffusional dissipation in a minimal quorum sensing motif. PLoS Comput Biol (2008) 1.12
Noise drives sharpening of gene expression boundaries in the zebrafish hindbrain. Mol Syst Biol (2012) 1.09
Spatial stochastic dynamics enable robust cell polarization. PLoS Comput Biol (2013) 1.08
A general model for binary cell fate decision gene circuits with degeneracy: indeterminacy and switch behavior in the absence of cooperativity. PLoS One (2011) 1.06
On the attenuation and amplification of molecular noise in genetic regulatory networks. BMC Bioinformatics (2006) 1.04
Spectral solutions to stochastic models of gene expression with bursts and regulation. Phys Rev E Stat Nonlin Soft Matter Phys (2009) 1.01
Nonidentifiability of the source of intrinsic noise in gene expression from single-burst data. PLoS Comput Biol (2008) 0.99
Synchronous long-term oscillations in a synthetic gene circuit. Nature (2016) 0.99
Positive receptor feedback during lineage commitment can generate ultrasensitivity to ligand and confer robustness to a bistable switch. Biophys J (2008) 0.97
Constructing stochastic models from deterministic process equations by propensity adjustment. BMC Syst Biol (2011) 0.95
Adjusting phenotypes by noise control. PLoS Comput Biol (2012) 0.94
Intrinsic fluctuations, robustness, and tunability in signaling cycles. Biophys J (2007) 0.92
Deterministic versus stochastic cell polarisation through wave-pinning. Bull Math Biol (2012) 0.90
The Goldbeter-Koshland switch in the first-order region and its response to dynamic disorder. PLoS One (2008) 0.90
Stochastic focusing coupled with negative feedback enables robust regulation in biochemical reaction networks. J R Soc Interface (2015) 0.87
Effects of input noise on a simple biochemical switch. Phys Rev Lett (2011) 0.87
Multiscale stochastic modelling of gene expression. J Math Biol (2011) 0.85
Fluctuation enhanced electrochemical reaction rates at the nanoscale. Proc Natl Acad Sci U S A (2010) 0.84
Stochastic steady state gain in a gene expression process with mRNA degradation control. J R Soc Interface (2012) 0.84
A self-organized model for cell-differentiation based on variations of molecular decay rates. PLoS One (2012) 0.83
Delay-induced anomalous fluctuations in intracellular regulation. Nat Commun (2011) 0.83
Optimal control of gene expression for fast proteome adaptation to environmental change. Proc Natl Acad Sci U S A (2013) 0.83
Internal noise-sustained circadian rhythms in a Drosophila model. Biophys J (2007) 0.82
Defining cooperativity in gene regulation locally through intrinsic noise. IET Syst Biol (2010) 0.81
Using temporal correlations and full distributions to separate intrinsic and extrinsic fluctuations in biological systems. Phys Rev Lett (2012) 0.81
A continuum model of transcriptional bursting. Elife (2016) 0.80
Modelling non-Markovian dynamics in biochemical reactions. BMC Syst Biol (2015) 0.80
The chemical master equation approach to nonequilibrium steady-state of open biochemical systems: linear single-molecule enzyme kinetics and nonlinear biochemical reaction networks. Int J Mol Sci (2010) 0.79
Accuracy of the Michaelis-Menten approximation when analysing effects of molecular noise. J R Soc Interface (2015) 0.79
Role of intracellular stochasticity in biofilm growth. Insights from population balance modeling. PLoS One (2013) 0.79
Modeling stochastic gene expression under repression. J Math Biol (2007) 0.79
An effective method for computing the noise in biochemical networks. J Chem Phys (2013) 0.78
Biological Sources of Intrinsic and Extrinsic Noise in cI Expression of Lysogenic Phage Lambda. Sci Rep (2015) 0.78
Challenges in structural approaches to cell modeling. J Mol Biol (2016) 0.78
Noise-stabilized long-distance synchronization in populations of model neurons. J Comput Neurosci (2003) 0.77
A framework for discrete stochastic simulation on 3D moving boundary domains. J Chem Phys (2016) 0.77
Delays induce novel stochastic effects in negative feedback gene circuits. Biophys J (2014) 0.77
A computational pipeline for identifying kinetic motifs to aid in the design and improvement of synthetic gene circuits. BMC Bioinformatics (2013) 0.77
Driving Cells to the Desired State in a Bimodal Distribution through Manipulation of Internal Noise with Biologically Practicable Approaches. PLoS One (2016) 0.75
The dynamic mechanism of noisy signal decoding in gene regulation. Sci Rep (2017) 0.75
Feedbacks, Bifurcations, and Cell Fate Decision-Making in the p53 System. PLoS Comput Biol (2016) 0.75
Intrinsic phenotypic stability of a bi-stable auto regulatory gene. Sci Rep (2016) 0.75
Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist. PLoS Comput Biol (2016) 0.75
Stochastic responses may allow genetically diverse cell populations to optimize performance with simpler signaling networks. PLoS One (2013) 0.75
Distinguishing the rates of gene activation from phenotypic variations. BMC Syst Biol (2015) 0.75
Complete integrability of information processing by biochemical reactions. Sci Rep (2016) 0.75
Active Degradation Explains the Distribution of Nuclear Proteins during Cellular Senescence. PLoS One (2015) 0.75
Determining the Limitations and Benefits of Noise in Gene Regulation and Signal Transduction through Single Cell, Microscopy-Based Analysis. J Mol Biol (2017) 0.75
Stochastic effects as a force to increase the complexity of signaling networks. Sci Rep (2013) 0.75
Dynamic disorder in simple enzymatic reactions induces stochastic amplification of substrate. J R Soc Interface (2017) 0.75
Mechanisms of stochastic focusing and defocusing in biological reaction networks: insight from accurate chemical master equation (ACME) solutions. Conf Proc IEEE Eng Med Biol Soc (2016) 0.75
Stochastic mechanisms in gene expression. Proc Natl Acad Sci U S A (1997) 13.65
Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells. Genetics (1998) 12.21
Robustness in simple biochemical networks. Nature (1997) 12.21
An amplified sensitivity arising from covalent modification in biological systems. Proc Natl Acad Sci U S A (1981) 10.04
It's a noisy business! Genetic regulation at the nanomolar scale. Trends Genet (1999) 7.09
Non-genetic individuality: chance in the single cell. Nature (1976) 5.52
Induced synthesis of enzymes in bacteria analyzed at the cellular level. Biochim Biophys Acta (1953) 5.06
Kinetic amplification of enzyme discrimination. Biochimie (1975) 4.95
Amplification and adaptation in regulatory and sensory systems. Science (1982) 4.19
Stochastic resonance and the benefits of noise: from ice ages to crayfish and SQUIDs. Nature (1995) 3.98
Modeling stochastic gene expression: implications for haploinsufficiency. Proc Natl Acad Sci U S A (1998) 3.49
A model for the statistical fluctuations of protein numbers in a microbial population. J Theor Biol (1978) 3.42
Parameter sensitivity as a criterion for evaluating and comparing the performance of biochemical systems. Nature (1971) 3.15
Does replication-induced transcription regulate synthesis of the myriad low copy number proteins of Escherichia coli? Bioessays (1995) 3.13
Stochastic resonance without tuning. Nature (1995) 2.61
Induction mechanism of a single gene molecule: stochastic or deterministic? Bioessays (1992) 2.51
Analysis of sequential reactions. Ann N Y Acad Sci (1963) 1.75
Mechanoelectrical transduction assisted by Brownian motion: a role for noise in the auditory system. Nat Neurosci (1998) 1.49
Trade-off between segregational stability and metabolic burden: a mathematical model of plasmid ColE1 replication control. J Mol Biol (1998) 1.43
Stochastic resonance. Neurons in parallel. Nature (1995) 0.96
Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters. J Mol Biol (1987) 17.53
Diffusion-driven mechanisms of protein translocation on nucleic acids. 1. Models and theory. Biochemistry (1981) 9.05
Facilitated target location in biological systems. J Biol Chem (1989) 7.18
Diffusion-driven mechanisms of protein translocation on nucleic acids. 3. The Escherichia coli lac repressor--operator interaction: kinetic measurements and conclusions. Biochemistry (1981) 5.28
Diffusion-controlled macromolecular interactions. Annu Rev Biophys Biophys Chem (1985) 4.87
Effects of environment on compensatory mutations to ameliorate costs of antibiotic resistance. Science (2000) 4.48
A model for the statistical fluctuations of protein numbers in a microbial population. J Theor Biol (1978) 3.42
Mutation frequency and biological cost of antibiotic resistance in Helicobacter pylori. Proc Natl Acad Sci U S A (2001) 3.42
Spontaneous separation of bi-stable biochemical systems into spatial domains of opposite phases. Syst Biol (Stevenage) (2004) 3.18
Random signal fluctuations can reduce random fluctuations in regulated components of chemical regulatory networks. Phys Rev Lett (2000) 3.14
On the specificity of DNA-protein interactions. Proc Natl Acad Sci U S A (1986) 3.11
Orientation constraints in diffusion-limited macromolecular association. The role of surface diffusion as a rate-enhancing mechanism. Biophys J (1985) 2.82
Noise in a minimal regulatory network: plasmid copy number control. Q Rev Biophys (2001) 2.72
Release factor RF3 in E.coli accelerates the dissociation of release factors RF1 and RF2 from the ribosome in a GTP-dependent manner. EMBO J (1997) 2.61
Novel roles for classical factors at the interface between translation termination and initiation. Mol Cell (1999) 2.42
Costs of accuracy determined by a maximal growth rate constraint. Q Rev Biophys (1984) 2.28
Is there proofreading during polypeptide synthesis? EMBO J (1982) 2.18
Association kinetics with coupled diffusional flows. Special application to the lac repressor--operator system. Biophys Chem (1976) 2.13
A posttermination ribosomal complex is the guanine nucleotide exchange factor for peptide release factor RF3. Cell (2001) 2.10
The accuracy of codon recognition by polypeptide release factors. Proc Natl Acad Sci U S A (2000) 2.03
Kinetic properties of Escherichia coli ribosomes with altered forms of S12. J Mol Biol (1992) 1.92
Hyper-accurate ribosomes inhibit growth. EMBO J (1984) 1.88
A post-translational modification in the GGQ motif of RF2 from Escherichia coli stimulates termination of translation. EMBO J (2000) 1.87
Fluorescence correlation spectroscopy applied to rotational diffusion of macromolecules. Q Rev Biophys (1976) 1.78
Fluctuations and quality of control in biological cells: zero-order ultrasensitivity reinvestigated. Biophys J (2000) 1.75
Ribosomal RNA and protein mutants resistant to spectinomycin. EMBO J (1990) 1.75
Selection of DNA binding sites by regulatory proteins. Trends Biochem Sci (1988) 1.73
Activities of constitutive promoters in Escherichia coli. J Mol Biol (1999) 1.70
Rate of translation of natural mRNAs in an optimized in vitro system. Arch Biochem Biophys (1996) 1.69
Fast recycling of Escherichia coli ribosomes requires both ribosome recycling factor (RRF) and release factor RF3. EMBO J (1997) 1.65
Kinetic studies on the cleavage of adenovirus DNA by restriction endonuclease Eco RI. Nucleic Acids Res (1976) 1.64
The kinetics of interfacial catalysis by phospholipase A2 and regulation of interfacial activation: hopping versus scooting. Biochim Biophys Acta (1989) 1.62
Association kinetics with coupled diffusion III. Ionic-strength dependence of the lac repressor-operator association. Biophys Chem (1978) 1.58
Dissociation rate of cognate peptidyl-tRNA from the A-site of hyper-accurate and error-prone ribosomes. Eur J Biochem (1994) 1.56
Allosteric mechanism for codon-dependent tRNA selection on ribosomes. Proc Natl Acad Sci U S A (1975) 1.53
Mimicry grasps reality in translation termination. Cell (2000) 1.50
Rate of elongation of polyphenylalanine in vitro. Eur J Biochem (1982) 1.45
Trade-off between segregational stability and metabolic burden: a mathematical model of plasmid ColE1 replication control. J Mol Biol (1998) 1.43
Ribosome release factor RF4 and termination factor RF3 are involved in dissociation of peptidyl-tRNA from the ribosome. EMBO J (1998) 1.41
Association kinetics with coupled three- and one-dimensional diffusion. Chain-length dependence of the association rate of specific DNA sites. Biophys Chem (1982) 1.32
Dissociation rates of peptidyl-tRNA from the P-site of E.coli ribosomes. EMBO J (1996) 1.32
Solution structure of the ternary complex between aminoacyl-tRNA, elongation factor Tu, and guanosine triphosphate. Biochemistry (1998) 1.31
A direct estimation of the context effect on the efficiency of termination. J Mol Biol (1998) 1.31
Interfacial enzymology of glycerolipid hydrolases: lessons from secreted phospholipases A2. Annu Rev Biochem (1995) 1.26
Is translation inhibited by noncognate ternary complexes? FEBS Lett (1988) 1.25
Initiation factors IF1 and IF2 synergistically remove peptidyl-tRNAs with short polypeptides from the P-site of translating Escherichia coli ribosomes. J Mol Biol (1998) 1.25
Fluctuations in repressor control: thermodynamic constraints on stochastic focusing. Biophys J (2000) 1.24
Diffusion-controlled protein-DNA association: influence of segmental diffusion of the DNA. Biopolymers (1984) 1.24
Mutations in ribosomal proteins L7/L12 perturb EF-G and EF-Tu functions. Biochimie (1988) 1.24
Growth-optimizing accuracy of gene expression. Annu Rev Biophys Biophys Chem (1987) 1.22
Release factor RF3 abolishes competition between release factor RF1 and ribosome recycling factor (RRF) for a ribosome binding site. J Mol Biol (1997) 1.19
Optimization of translation accuracy. Prog Nucleic Acid Res Mol Biol (1984) 1.18
Shutdown in protein synthesis due to the expression of mini-genes in bacteria. J Mol Biol (1999) 1.18
Thermodynamic constraints on kinetic proofreading in biosynthetic pathways. Biophys J (1980) 1.18
The mRNA cap structure stimulates rate of poly(A) removal and amplifies processivity of degradation. J Biol Chem (2001) 1.17
Free RNA polymerase and modeling global transcription in Escherichia coli. Biochimie (2003) 1.16
Mutations in RNAs of both ribosomal subunits cause defects in translation termination. EMBO J (1998) 1.16
Origins of minigene-dependent growth inhibition in bacterial cells. EMBO J (2000) 1.14
Fusidic acid-resistant EF-G perturbs the accumulation of ppGpp. Mol Microbiol (2000) 1.12
An A to U transversion at position 1067 of 23 S rRNA from Escherichia coli impairs EF-Tu and EF-G function. J Mol Biol (1997) 1.10
On the structure and conformational dynamics of yeast phenylalanine-accepting transfer ribonucleic acid in solution. Biochemistry (1979) 1.10
How do combinations of rpsL- and miaA- generate streptomycin dependence? Mol Gen Genet (1986) 1.10
Guanosine tetraphosphate as a global regulator of bacterial RNA synthesis: a model involving RNA polymerase pausing and queuing. Biochim Biophys Acta (1995) 1.10
Mutations in 23 S ribosomal RNA perturb transfer RNA selection and can lead to streptomycin dependence. J Mol Biol (1994) 1.09
Gradients in nucleotide and codon usage along Escherichia coli genes. Nucleic Acids Res (2000) 1.08
ms2i6A deficiency enhances proofreading in translation. J Mol Biol (1991) 1.07
Fluorescence relaxation spectroscopy in the analysis of macromolecular structure and motion. Q Rev Biophys (1976) 1.06
Association kinetics with coupled diffusion. An extension to coiled-chain macromolecules applied to the lac repressor-operator system. Biophys Chem (1977) 1.05
Rate, accuracy and cost of ribosomes in bacterial cells. Biochimie (2006) 1.04
Molecular interactions and structure as analysed by fluorescence relaxation spectroscopy. Q Rev Biophys (1973) 1.04
Characterisation of a new, fully active fluorescent derivative of E. coli tRNA Phe. Nucleic Acids Res (1980) 1.03
Assay of phospholipases A(2) and their inhibitors by kinetic analysis in the scooting mode. Mediators Inflamm (1992) 1.03
Binding of SecB to ribosome-bound polypeptides has the same characteristics as binding to full-length, denatured proteins. Proc Natl Acad Sci U S A (1997) 1.01
Comparison of repressor and transcriptional attenuator systems for control of amino acid biosynthetic operons. J Mol Biol (2001) 1.00
Catalytic effects of elongation factor Ts on polypeptide synthesis. EMBO J (1982) 0.98
Kinetic basis for interfacial catalysis by phospholipase A2. Methods Enzymol (1995) 0.97
Kinetic properties of rrn promoters in Escherichia coli. Biochimie (2002) 0.97
Constraints on the accuracy of messenger RNA movement. Q Rev Biophys (1985) 0.96
Interfacial catalysis by phospholipase A2: dissociation constants for calcium, substrate, products, and competitive inhibitors. Biochemistry (1991) 0.96
Decay of rplN and lacZ mRNA in Escherichia coli. J Mol Biol (1999) 0.95
The origins of modern proteomes. Biochimie (2007) 0.95
Kinetic suppression of translational errors by (p)ppGpp. Mol Gen Genet (1982) 0.94
Mutations in conserved regions of ribosomal RNAs decrease the productive association of peptide-chain release factors with the ribosome during translation termination. Biochimie (2000) 0.93
Effective diffusion rate through a polymer network: influence of nonspecific binding and intersegment transfer. Biopolymers (1986) 0.93
Varying rate of RNA chain elongation during rrn transcription in Escherichia coli. J Bacteriol (2009) 0.93
Structural basis of the anionic interface preference and kcat* activation of pancreatic phospholipase A2. Biochemistry (2000) 0.91
The divalent cation is obligatory for the binding of ligands to the catalytic site of secreted phospholipase A2. Biochemistry (1993) 0.90
Intermembrane molecular contacts by polymyxin B mediate exchange of phospholipids. Biochemistry (1996) 0.90
Requirements for rapid plasmid ColE1 copy number adjustments: a mathematical model of inhibition modes and RNA turnover rates. Plasmid (1998) 0.90
[Effect of the phase-stage of preculture cells on ascospore formation by Saccharomyces cerevisiae]. Arch Mikrobiol (1971) 0.90
Counting cycles of EF-Tu to measure proofreading in translation. Biochimie (1986) 0.90
Inhibition of phospholipase A2. FASEB J (1994) 0.88
ppGpp inhibition of elongation factors Tu, G and Ts during polypeptide synthesis. Mol Gen Genet (1984) 0.88
Use of an imperfect neutral diluent and outer vesicle layer scooting mode hydrolysis to analyze the interfacial kinetics, inhibition, and substrate preferences of bee venom phospholipase A2. Biochemistry (1997) 0.87
Fluorescence relaxation of proflavin-deoxyribonucleic acid interaction. Kinetic properties of a base-specific reaction. Biochemistry (1980) 0.87
Microscopic diffusion-reaction coupling in steady-state enzyme kinetics. Biophys Chem (1983) 0.85
Gas-mediated vitreous compression: an experimental alternative to mechanized vitrectomy. Graefes Arch Clin Exp Ophthalmol (1984) 0.84