Genetic regulatory networks that count to 3.

Processing Oscillatory Signals by Incoherent Feedforward Loops. PLoS Comput Biol (2016) 0.76

Specificity and stability in topology of protein networks. Science (2002) 21.07

Modularity and extreme edges of the internet. Phys Rev Lett (2003) 3.34

Theoretical analysis of epigenetic cell memory by nucleosome modification. Cell (2007) 3.17

Stability puzzles in phage lambda. Phys Rev E Stat Nonlin Soft Matter Phys (2002) 2.25

Hierarchy measures in complex networks. Phys Rev Lett (2004) 1.76

Minimal model of spiky oscillations in NF-kappaB signaling. Proc Natl Acad Sci U S A (2006) 1.68

Toolbox model of evolution of prokaryotic metabolic networks and their regulation. Proc Natl Acad Sci U S A (2009) 1.60

Upstream plasticity and downstream robustness in evolution of molecular networks. BMC Evol Biol (2004) 1.36

Efficient degradation and expression prioritization with small RNAs. Phys Biol (2007) 1.33

Single-cell analysis of lambda immunity regulation. J Mol Biol (2003) 1.28

Genetic regulation of fluxes: iron homeostasis of Escherichia coli. Nucleic Acids Res (2006) 1.25

Signal integration in the galactose network of Escherichia coli. Mol Microbiol (2007) 1.25

Dynamic features of gene expression control by small regulatory RNAs. Proc Natl Acad Sci U S A (2009) 1.23

Ribosome collisions and translation efficiency: optimization by codon usage and mRNA destabilization. J Mol Biol (2008) 1.15

Coexistence of phage and bacteria on the boundary of self-organized refuges. Proc Natl Acad Sci U S A (2012) 1.14

Combinatorics of feedback in cellular uptake and metabolism of small molecules. Proc Natl Acad Sci U S A (2007) 1.11

Computational architecture of the yeast regulatory network. Phys Biol (2005) 1.10

Conditional cooperativity in toxin-antitoxin regulation prevents random toxin activation and promotes fast translational recovery. Nucleic Acids Res (2012) 1.06

Protein interaction networks beyond artifacts. FEBS Lett (2002) 1.04

Why do phage play dice? J Virol (2009) 1.03

Localization of denaturation bubbles in random DNA sequences. Proc Natl Acad Sci U S A (2003) 1.01

Spatial structure and Lamarckian adaptation explain extreme genetic diversity at CRISPR locus. MBio (2012) 0.99

The generation of promoter-mediated transcriptional noise in bacteria. PLoS Comput Biol (2008) 0.99

Targeted bacterial immunity buffers phage diversity. J Virol (2011) 0.98

Sustainability of virulence in a phage-bacterial ecosystem. J Virol (2010) 0.95

DNA supercoiling enhances cooperativity and efficiency of an epigenetic switch. Proc Natl Acad Sci U S A (2013) 0.95

Sensitivity of OR in phage lambda. Biophys J (2004) 0.95

Modelling transcriptional interference and DNA looping in gene regulation. J Mol Biol (2007) 0.93

Structure and function of negative feedback loops at the interface of genetic and metabolic networks. Nucleic Acids Res (2006) 0.93

Modeling the two-hybrid detector: experimental bias on protein interaction networks. Biophys J (2007) 0.92

Quorum sensing regulation in Aeromonas hydrophila. J Mol Biol (2010) 0.92

Theory for the stability and regulation of epigenetic landscapes. Phys Biol (2010) 0.92

Dominant negative autoregulation limits steady-state repression levels in gene networks. J Bacteriol (2009) 0.91

Functional alignment of regulatory networks: a study of temperate phages. PLoS Comput Biol (2005) 0.91

Direct and indirect effects in the regulation of overlapping promoters. Nucleic Acids Res (2011) 0.91

Relation of intracellular signal levels and promoter activities in the gal regulon of Escherichia coli. J Mol Biol (2009) 0.90

UV-induced mutagenesis in Escherichia coli SOS response: a quantitative model. PLoS Comput Biol (2007) 0.89

Labyrinthine clustering in a spatial rock-paper-scissors ecosystem. Phys Rev E Stat Nonlin Soft Matter Phys (2013) 0.88

Network models of phage-bacteria coevolution. Phys Rev E Stat Nonlin Soft Matter Phys (2006) 0.88

Competition between diffusion and fragmentation: an important evolutionary process of nature. Phys Rev Lett (2003) 0.88

Ecosystems with mutually exclusive interactions self-organize to a state of high diversity. Phys Rev Lett (2011) 0.87

The functional half-life of an mRNA depends on the ribosome spacing in an early coding region. J Mol Biol (2011) 0.86

Variability-based sequence alignment identifies residues responsible for functional differences in alpha and beta tubulin. Protein Sci (2004) 0.86

Barriers and silencers: a theoretical toolkit for control and containment of nucleosome-based epigenetic states. J Mol Biol (2011) 0.84

Modeling of the genetic switch of bacteriophage TP901-1: A heteromer of CI and MOR ensures robust bistability. J Mol Biol (2009) 0.84

Collaboration between CpG sites is needed for stable somatic inheritance of DNA methylation states. Nucleic Acids Res (2013) 0.83

Dynamical analysis on gene activity in the presence of repressors and an interfering promoter. Biophys J (2008) 0.83

Degree landscapes in scale-free networks. Phys Rev E Stat Nonlin Soft Matter Phys (2006) 0.82

Quantifying the benefits of translation regulation in the unfolded protein response. Phys Biol (2004) 0.82

Differentiation of developing olfactory neurons analysed in terms of coupled epigenetic landscapes. Nucleic Acids Res (2013) 0.82

Conditional cooperativity of toxin - antitoxin regulation can mediate bistability between growth and dormancy. PLoS Comput Biol (2013) 0.81

Minimal gene regulatory circuits for a lysis-lysogeny choice in the presence of noise. PLoS One (2010) 0.81

Detection of topological patterns in protein networks. Genet Eng (N Y) (2004) 0.81

Clonal selection prevents tragedy of the commons when neighbors compete in a rock-paper-scissors game. Phys Rev E Stat Nonlin Soft Matter Phys (2012) 0.81

Longevity of orders is related to the longevity of their constituent genera rather than genus richness. Theory Biosci (2008) 0.80

Spreading of multiple epidemics with cross immunization. Phys Rev E Stat Nonlin Soft Matter Phys (2012) 0.80

Dynamics of uptake and metabolism of small molecules in cellular response systems. PLoS One (2009) 0.80

Spreading out of perturbations in reversible reaction networks. New J Phys (2007) 0.80

Modeling the spatial dynamics of culture spreading in the presence of cultural strongholds. Phys Rev E Stat Nonlin Soft Matter Phys (2011) 0.79

Emergence of diversity in a model ecosystem. Phys Rev E Stat Nonlin Soft Matter Phys (2012) 0.78

Information spreading and development of cultural centers. Phys Rev E Stat Nonlin Soft Matter Phys (2012) 0.77

Specific contacts of the -35 region of the galP1 promoter by RNA polymerase inhibit GalR-mediated DNA looping repression. Nucleic Acids Res (2012) 0.77

Short-range growth inhibitory signals from the epithelium can drive non-stereotypic branching in the pancreas. Phys Biol (2016) 0.76

Protein localization with flexible DNA or RNA. PLoS One (2012) 0.75

Key players in the genetic switch of bacteriophage TP901-1. Biophys J (2011) 0.75

One hub-one process: a tool based view on regulatory network topology. BMC Syst Biol (2008) 0.75

Modeling dynamics of information networks. Phys Rev Lett (2003) 0.75

Quality control system response to stochastic growth of amyloid fibrils. FEBS Lett (2013) 0.75

Locally self-organized quasicritical percolation in a multiple-disease model. Phys Rev E Stat Nonlin Soft Matter Phys (2011) 0.75

Organizational structure and communication networks in a university environment. Phys Rev E Stat Nonlin Soft Matter Phys (2010) 0.75

Dynamics of the recovery from sRNA-mediated gene silencing. Cell Cycle (2009) 0.75

Visualization of large-scale correlations in gene expressions. Funct Integr Genomics (2004) 0.75