Combinatorial synthesis of genetic networks.

Structure and function of the feed-forward loop network motif. Proc Natl Acad Sci U S A (2003) 12.50

Synthetic biology: applications come of age. Nat Rev Genet (2010) 6.96

On schemes of combinatorial transcription logic. Proc Natl Acad Sci U S A (2003) 6.02

Programmable cells: interfacing natural and engineered gene networks. Proc Natl Acad Sci U S A (2004) 4.72

Directed evolution of a genetic circuit. Proc Natl Acad Sci U S A (2002) 4.26

Diversity-based, model-guided construction of synthetic gene networks with predicted functions. Nat Biotechnol (2009) 3.86

Robust multicellular computing using genetically encoded NOR gates and chemical 'wires'. Nature (2010) 3.69

Higher-order cellular information processing with synthetic RNA devices. Science (2008) 3.64

Spatiotemporal control of gene expression with pulse-generating networks. Proc Natl Acad Sci U S A (2004) 3.61

Transcriptional regulation by the numbers: applications. Curr Opin Genet Dev (2005) 3.40

Synergistic and tunable human gene activation by combinations of synthetic transcription factors. Nat Methods (2013) 3.26

Environmental signal integration by a modular AND gate. Mol Syst Biol (2007) 3.25

Plasticity of the cis-regulatory input function of a gene. PLoS Biol (2006) 3.22

A synthetic genetic edge detection program. Cell (2009) 3.20

Design of genetic networks with specified functions by evolution in silico. Proc Natl Acad Sci U S A (2004) 2.60

Dynamic properties of network motifs contribute to biological network organization. PLoS Biol (2005) 2.58

A synthetic biology framework for programming eukaryotic transcription functions. Cell (2012) 2.32

Aspects of plant intelligence. Ann Bot (2003) 2.10

Engineering modular and orthogonal genetic logic gates for robust digital-like synthetic biology. Nat Commun (2011) 2.06

Single-cell protein induction dynamics reveals a period of vulnerability to antibiotics in persister bacteria. Proc Natl Acad Sci U S A (2008) 1.98

Topology and robustness in the Drosophila segment polarity network. PLoS Biol (2004) 1.95

RNA processing enables predictable programming of gene expression. Nat Biotechnol (2012) 1.92

Optimizing genetic circuits by global sensitivity analysis. Biophys J (2004) 1.87

Principles of genetic circuit design. Nat Methods (2014) 1.79

Rewiring cells: synthetic biology as a tool to interrogate the organizational principles of living systems. Annu Rev Biophys (2010) 1.78

Potential energy landscape and robustness of a gene regulatory network: toggle switch. PLoS Comput Biol (2007) 1.75

Synthetic biology: understanding biological design from synthetic circuits. Nat Rev Genet (2009) 1.70

Foundations for the design and implementation of synthetic genetic circuits. Nat Rev Genet (2012) 1.65

Nonlinear protein degradation and the function of genetic circuits. Proc Natl Acad Sci U S A (2005) 1.65

Biomolecular computing systems: principles, progress and potential. Nat Rev Genet (2012) 1.59

Tunable and multifunctional eukaryotic transcription factors based on CRISPR/Cas. ACS Synth Biol (2013) 1.58

Real-time RNA profiling within a single bacterium. Proc Natl Acad Sci U S A (2005) 1.56

Optimal signal processing in small stochastic biochemical networks. PLoS One (2007) 1.55

Synthetic in vitro transcriptional oscillators. Mol Syst Biol (2011) 1.53

Tuning and controlling gene expression noise in synthetic gene networks. Nucleic Acids Res (2010) 1.52

Synthesizing a novel genetic sequential logic circuit: a push-on push-off switch. Mol Syst Biol (2010) 1.52

Engineering gene networks to emulate Drosophila embryonic pattern formation. PLoS Biol (2005) 1.48

Accurate prediction of gene feedback circuit behavior from component properties. Mol Syst Biol (2007) 1.45

Rationally designed logic integration of regulatory signals in mammalian cells. Nat Nanotechnol (2010) 1.42

Gateway vectors for efficient artificial gene assembly in vitro and expression in yeast Saccharomyces cerevisiae. PLoS One (2013) 1.42

Synthetic biology in mammalian cells: next generation research tools and therapeutics. Nat Rev Mol Cell Biol (2014) 1.41

Biology by design: reduction and synthesis of cellular components and behaviour. J R Soc Interface (2007) 1.33

The application of Tet repressor in prokaryotic gene regulation and expression. Microb Biotechnol (2008) 1.33

Directed evolution of AraC for improved compatibility of arabinose- and lactose-inducible promoters. Appl Environ Microbiol (2007) 1.26

Optimization of a stochastically simulated gene network model via simulated annealing. Biophys J (2006) 1.25

OptCircuit: an optimization based method for computational design of genetic circuits. BMC Syst Biol (2008) 1.24

The Bacillus subtilis sin operon: an evolvable network motif. Genetics (2004) 1.24

Implications of rewiring bacterial quorum sensing. Appl Environ Microbiol (2007) 1.21

Threshold-dominated regulation hides genetic variation in gene expression networks. BMC Syst Biol (2007) 1.21

Rapid and orthogonal logic gating with a gibberellin-induced dimerization system. Nat Chem Biol (2012) 1.20

Programming cells: towards an automated 'Genetic Compiler'. Curr Opin Biotechnol (2010) 1.20

Highly designable phenotypes and mutational buffers emerge from a systematic mapping between network topology and dynamic output. Proc Natl Acad Sci U S A (2006) 1.18

Uncovering cis regulatory codes using synthetic promoter shuffling. PLoS One (2008) 1.16

Design of a directed molecular network. Proc Natl Acad Sci U S A (2004) 1.13

Regulation by transcription factors in bacteria: beyond description. FEMS Microbiol Rev (2009) 1.12

Boolean logic functions of a synthetic peptide network. J Am Chem Soc (2004) 1.10

Intelligent medical diagnostics via molecular logic. J Am Chem Soc (2009) 1.09

Inferring Drosophila gap gene regulatory network: a parameter sensitivity and perturbation analysis. BMC Syst Biol (2009) 1.08

Localized transfection on arrays of magnetic beads coated with PCR products. Nat Methods (2005) 1.06

Tweaking biological switches through a better understanding of bistability behavior. Curr Opin Biotechnol (2008) 1.06

The selective values of alleles in a molecular network model are context dependent. Genetics (2004) 1.05

Modeling structure-function relationships in synthetic DNA sequences using attribute grammars. PLoS Comput Biol (2009) 1.03

Construction and enhancement of a minimal genetic and logic gate. Appl Environ Microbiol (2008) 1.02

Regulatory circuit design and evolution using phage lambda. Genes Dev (2004) 1.02

Rules for biological regulation based on error minimization. Proc Natl Acad Sci U S A (2006) 1.01

Systems interface biology. J R Soc Interface (2006) 1.01

Synthesizing biomolecule-based Boolean logic gates. ACS Synth Biol (2013) 1.00

Neutral fitness landscapes in signalling networks. J R Soc Interface (2007) 0.98

Limitations of quantitative gene regulation models: a case study. Genome Res (2003) 0.96

A unified design space of synthetic stripe-forming networks. Nat Commun (2014) 0.96

Bimodal and hysteretic expression in mammalian cells from a synthetic gene circuit. PLoS One (2008) 0.96

A synthetic phage lambda regulatory circuit. Proc Natl Acad Sci U S A (2006) 0.95

High-precision, in vitro validation of the sequestration mechanism for generating ultrasensitive dose-response curves in regulatory networks. PLoS Comput Biol (2011) 0.95

Shadow Enhancers Are Pervasive Features of Developmental Regulatory Networks. Curr Biol (2015) 0.93

Ab initio thermodynamic modeling of distal multisite transcription regulation. Nucleic Acids Res (2007) 0.93

Molecular flip-flops formed by overlapping Fis sites. Nucleic Acids Res (2003) 0.92

A nucleoside kinase as a dual selector for genetic switches and circuits. Nucleic Acids Res (2010) 0.92

Engineering prokaryotic gene circuits. FEMS Microbiol Rev (2008) 0.91

Synthetic analog and digital circuits for cellular computation and memory. Curr Opin Biotechnol (2014) 0.90

Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Res (2011) 0.90

Beyond directed evolution: Darwinian selection as a tool for synthetic biology. Syst Synth Biol (2009) 0.90

Constraint and contingency in multifunctional gene regulatory circuits. PLoS Comput Biol (2013) 0.89

Understanding the dynamic behavior of genetic regulatory networks by functional decomposition. Curr Genomics (2006) 0.89

Engineering reduced evolutionary potential for synthetic biology. Mol Biosyst (2014) 0.88

Mathematical modeling: bridging the gap between concept and realization in synthetic biology. J Biomed Biotechnol (2010) 0.88

A biobrick library for cloning custom eukaryotic plasmids. PLoS One (2011) 0.86

A microarray data-based semi-kinetic method for predicting quantitative dynamics of genetic networks. BMC Bioinformatics (2005) 0.86

The influence of assortativity on the robustness and evolvability of gene regulatory networks upon gene birth. J Theor Biol (2013) 0.85

Dynamical determinants of drug-inducible gene expression in a single bacterium. Biophys J (2006) 0.85

Engineering orthogonal dual transcription factors for multi-input synthetic promoters. Nat Commun (2016) 0.85

Computational design of digital and memory biological devices. Syst Synth Biol (2008) 0.84

Implementing arithmetic and other analytic operations by transcriptional regulation. PLoS Comput Biol (2008) 0.84

Quantifying evolvability in small biological networks. IET Syst Biol (2009) 0.84

Rational design of modular circuits for gene transcription: A test of the bottom-up approach. J Biol Eng (2010) 0.84

Design of molecular logic devices based on a programmable DNA-regulated semisynthetic enzyme. Angew Chem Int Ed Engl (2007) 0.84

Transcriptional response of E. coli upon FimH-mediated fimbrial adhesion. Gene Regul Syst Bio (2010) 0.83

A self-organized model for cell-differentiation based on variations of molecular decay rates. PLoS One (2012) 0.83

Gene-gene cooperativity in small networks. Biophys J (2009) 0.83

The evolution of complex gene regulation by low-specificity binding sites. Proc Biol Sci (2013) 0.82

A systems biological view of intracellular pathogens. Immunol Rev (2011) 0.81

Bacterial persistence as a phenotypic switch. Science (2004) 15.80

Gene regulation at the single-cell level. Science (2005) 11.52

Intrinsic and extrinsic contributions to stochasticity in gene expression. Proc Natl Acad Sci U S A (2002) 11.46

Dynamics of the p53-Mdm2 feedback loop in individual cells. Nat Genet (2004) 8.30

Phenotypic diversity, population growth, and information in fluctuating environments. Science (2005) 8.21

Functional roles for noise in genetic circuits. Nature (2010) 6.96

Negative autoregulation speeds the response times of transcription networks. J Mol Biol (2002) 6.32

An excitable gene regulatory circuit induces transient cellular differentiation. Nature (2006) 6.03

Establishment of developmental precision and proportions in the early Drosophila embryo. Nature (2002) 5.55

Tunability and noise dependence in differentiation dynamics. Science (2007) 5.23

Frequency-modulated nuclear localization bursts coordinate gene regulation. Nature (2008) 4.63

Resilient circadian oscillator revealed in individual cyanobacteria. Nature (2004) 3.84

Mechanisms of noise-resistance in genetic oscillators. Proc Natl Acad Sci U S A (2002) 3.78

Protein sectors: evolutionary units of three-dimensional structure. Cell (2009) 3.76

Reconstruction of genetic circuits. Nature (2005) 3.41

Dynamic persistence of antibiotic-stressed mycobacteria. Science (2013) 3.34

Programming gene expression with combinatorial promoters. Mol Syst Biol (2007) 3.29

Cis-interactions between Notch and Delta generate mutually exclusive signalling states. Nature (2010) 3.06

Architecture-dependent noise discriminates functionally analogous differentiation circuits. Cell (2009) 3.05

Bacterial persistence: a model of survival in changing environments. Genetics (2005) 2.97

Simpson's paradox in a synthetic microbial system. Science (2009) 2.97

Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. Proc Natl Acad Sci U S A (2004) 2.83

The ePetri dish, an on-chip cell imaging platform based on subpixel perspective sweeping microscopy (SPSM). Proc Natl Acad Sci U S A (2011) 2.55

Regulatory activity revealed by dynamic correlations in gene expression noise. Nat Genet (2008) 2.49

Using movies to analyse gene circuit dynamics in single cells. Nat Rev Microbiol (2009) 2.44

Positive feedback between PU.1 and the cell cycle controls myeloid differentiation. Science (2013) 2.31

DNA looping and physical constraints on transcription regulation. J Mol Biol (2003) 2.26

Pulsed feedback defers cellular differentiation. PLoS Biol (2012) 2.13

Modeling network dynamics: the lac operon, a case study. J Cell Biol (2003) 2.03

Stochastic pulse regulation in bacterial stress response. Science (2011) 1.97

Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy. Nat Protoc (2011) 1.94

Functional roles of pulsing in genetic circuits. Science (2013) 1.84

Environmental stresses can alleviate the average deleterious effect of mutations. J Biol (2003) 1.76

The presence of p53 mutations in human osteosarcomas correlates with high levels of genomic instability. Proc Natl Acad Sci U S A (2003) 1.69

Synthetic biology: integrated gene circuits. Science (2011) 1.66

Partial penetrance facilitates developmental evolution in bacteria. Nature (2009) 1.66

A general mechanism for network-dosage compensation in gene circuits. Science (2010) 1.59

Accurate prediction of gene feedback circuit behavior from component properties. Mol Syst Biol (2007) 1.45

An interdomain sector mediating allostery in Hsp70 molecular chaperones. Mol Syst Biol (2010) 1.42

A fluctuation method to quantify in vivo fluorescence data. Biophys J (2006) 1.39

Contingency and statistical laws in replicate microbial closed ecosystems. Cell (2012) 1.23

Cooperation and Hamilton's rule in a simple synthetic microbial system. Mol Syst Biol (2010) 1.22

Rate of environmental change determines stress response specificity. Proc Natl Acad Sci U S A (2013) 1.21

Neuronal couplings between retinal ganglion cells inferred by efficient inverse statistical physics methods. Proc Natl Acad Sci U S A (2009) 1.20

Mutual inactivation of Notch receptors and ligands facilitates developmental patterning. PLoS Comput Biol (2011) 1.16

Quantitation of cellular dynamics in growing Arabidopsis roots with light sheet microscopy. PLoS One (2011) 1.10

The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication. Proc Natl Acad Sci U S A (2008) 1.05

A synthetic three-color scaffold for monitoring genetic regulation and noise. J Biol Eng (2010) 1.03

Speed, dissipation, and error in kinetic proofreading. Proc Natl Acad Sci U S A (2012) 0.97

Printing multistrain bacterial patterns with a piezoelectric inkjet printer. PLoS One (2007) 0.95

Microbial population dynamics by digital in-line holographic microscopy. Rev Sci Instrum (2010) 0.91

Dynamical consequences of bandpass feedback loops in a bacterial phosphorelay. PLoS One (2011) 0.91

Behavioral diversity in microbes and low-dimensional phenotypic spaces. Proc Natl Acad Sci U S A (2013) 0.86

Brf1 posttranscriptionally regulates pluripotency and differentiation responses downstream of Erk MAP kinase. Proc Natl Acad Sci U S A (2014) 0.85

Polymer-population mapping and localization in the space of phenotypes. Phys Rev Lett (2006) 0.82

Following evolution of bacterial antibiotic resistance in real time. Nat Genet (2011) 0.75

Mixed messages: how bacteria resolve conflicting signals. Mol Cell (2011) 0.75

Synthetic biology of multicellular systems: new platforms and applications for animal cells and organisms. ACS Synth Biol (2014) 0.75