Published in Philos Trans A Math Phys Eng Sci on May 15, 2006
Delay-induced degrade-and-fire oscillations in small genetic circuits. Phys Rev Lett (2009) 1.87
Oscillatory regulation of Hes1: Discrete stochastic delay modelling and simulation. PLoS Comput Biol (2006) 1.66
Modeling the dynamics of transcriptional gene regulatory networks for animal development. Dev Biol (2008) 1.37
Tuning the mammalian circadian clock: robust synergy of two loops. PLoS Comput Biol (2011) 1.18
Delayed coupling theory of vertebrate segmentation. HFSP J (2008) 1.11
Computational models of the Notch network elucidate mechanisms of context-dependent signaling. PLoS Comput Biol (2009) 1.07
Spatial stochastic modelling of the Hes1 gene regulatory network: intrinsic noise can explain heterogeneity in embryonic stem cell differentiation. J R Soc Interface (2013) 1.04
A proposed mechanism for the interaction of the segmentation clock and the determination front in somitogenesis. PLoS One (2008) 1.02
The role of dimerisation and nuclear transport in the Hes1 gene regulatory network. Bull Math Biol (2013) 0.94
The interplay of cis-regulatory elements rules circadian rhythms in mouse liver. PLoS One (2012) 0.93
A Wnt oscillator model for somitogenesis. Biophys J (2010) 0.89
Probability distributed time delays: integrating spatial effects into temporal models. BMC Syst Biol (2010) 0.89
Cellular corepressor TLE2 inhibits replication-and-transcription- activator-mediated transactivation and lytic reactivation of Kaposi's sarcoma-associated herpesvirus. J Virol (2009) 0.86
From dynamic expression patterns to boundary formation in the presomitic mesoderm. PLoS Comput Biol (2012) 0.81
Bifurcation analysis informs Bayesian inference in the Hes1 feedback loop. BMC Syst Biol (2009) 0.79
Stochastic oscillations induced by intrinsic fluctuations in a self-repressing gene. Biophys J (2014) 0.76
Practical lessons from theoretical models about the somitogenesis. Gene Regul Syst Bio (2007) 0.76
How time delay and network design shape response patterns in biochemical negative feedback systems. BMC Syst Biol (2016) 0.76
Time to Decide? Dynamical Analysis Predicts Partial Tip/Stalk Patterning States Arise during Angiogenesis. PLoS One (2016) 0.76
Unraveling the differential dynamics of developmental fate in central and peripheral nervous systems. Sci Rep (2016) 0.75
A systems view of the protein expression process. Syst Synth Biol (2011) 0.75
Linear models of activation cascades: analytical solutions and coarse-graining of delayed signal transduction. J R Soc Interface (2016) 0.75
Dynamic spatial pattern formation in the sea urchin embryo. J Math Biol (2013) 0.75
Biological profiling of gene groups utilizing Gene Ontology. Genome Inform (2005) 4.10
Differential effects of PER2 phosphorylation: molecular basis for the human familial advanced sleep phase syndrome (FASPS). Genes Dev (2006) 3.78
Spontaneous synchronization of coupled circadian oscillators. Biophys J (2005) 2.55
UniHI: an entry gate to the human protein interactome. Nucleic Acids Res (2006) 2.45
Mathematical modeling identifies inhibitors of apoptosis as mediators of positive feedback and bistability. PLoS Comput Biol (2006) 2.30
Molecular insights into human daily behavior. Proc Natl Acad Sci U S A (2008) 2.03
Feedback regulation in the lactose operon: a mathematical modeling study and comparison with experimental data. Biophys J (2003) 2.01
Coupling governs entrainment range of circadian clocks. Mol Syst Biol (2010) 1.85
Effects of sequestration on signal transduction cascades. FEBS J (2006) 1.84
Identification of cyanobacterial non-coding RNAs by comparative genome analysis. Genome Biol (2005) 1.82
Comparison of human protein-protein interaction maps. Bioinformatics (2007) 1.79
Synchronization-induced rhythmicity of circadian oscillators in the suprachiasmatic nucleus. PLoS Comput Biol (2007) 1.71
Regulation of clock-controlled genes in mammals. PLoS One (2009) 1.65
Beta-TrCP1-mediated degradation of PERIOD2 is essential for circadian dynamics. J Biol Rhythms (2007) 1.64
A mathematical model of hematopoiesis--I. Periodic chronic myelogenous leukemia. J Theor Biol (2005) 1.52
How robust are switches in intracellular signaling cascades? J Theor Biol (2003) 1.47
Functioning and robustness of a bacterial circadian clock. Mol Syst Biol (2007) 1.46
Modeling feedback loops of the Mammalian circadian oscillator. Biophys J (2004) 1.45
Comparison of biomechanical modeling of register transitions and voice instabilities with excised larynx experiments. J Acoust Soc Am (2007) 1.43
Recurrent design patterns in the feedback regulation of the mammalian signalling network. Mol Syst Biol (2008) 1.41
Influence of catabolite repression and inducer exclusion on the bistable behavior of the lac operon. Biophys J (2004) 1.36
Inferring combinatorial regulation of transcription in silico. Nucleic Acids Res (2005) 1.26
Small RNAs establish delays and temporal thresholds in gene expression. Biophys J (2008) 1.24
Why the lysogenic state of phage lambda is so stable: a mathematical modeling approach. Biophys J (2004) 1.23
Bifurcation analysis of the regulatory modules of the mammalian G1/S transition. Bioinformatics (2004) 1.22
Are we overestimating the number of cell-cycling genes? The impact of background models on time-series analysis. Bioinformatics (2008) 1.20
Analysis of cell kinetics using a cell division marker: mathematical modeling of experimental data. Biophys J (2003) 1.19
Experimental and computational analysis of transcriptional start sites in the cyanobacterium Prochlorococcus MED4. Nucleic Acids Res (2003) 1.18
Tuning the mammalian circadian clock: robust synergy of two loops. PLoS Comput Biol (2011) 1.18
Nonlinear analysis of irregular animal vocalizations. J Acoust Soc Am (2002) 1.17
Quantification of circadian rhythms in single cells. PLoS Comput Biol (2009) 1.14
Measuring similarities between transcription factor binding sites. BMC Bioinformatics (2005) 1.13
Competing docking interactions can bring about bistability in the MAPK cascade. Biophys J (2007) 1.13
Identification of Y-box binding protein 1 as a core regulator of MEK/ERK pathway-dependent gene signatures in colorectal cancer cells. PLoS Genet (2010) 1.12
A mathematical model of hematopoiesis: II. Cyclical neutropenia. J Theor Biol (2005) 1.09
Dynamic hematological disease: a review. J Math Biol (2008) 1.08
Global parameter search reveals design principles of the mammalian circadian clock. BMC Syst Biol (2008) 1.08
Quantitative analysis of ultrasensitive responses. FEBS J (2005) 1.08
Identification of distinct antibody epitopes and mimotopes from a peptide array of 5520 randomly generated sequences. J Immunol Methods (2002) 1.05
Periodicities of 10-11bp as indicators of the supercoiled state of genomic DNA. J Mol Biol (2004) 1.05
How to achieve fast entrainment? The timescale to synchronization. PLoS One (2009) 1.04
Entrainment in a model of the mammalian circadian oscillator. J Biol Rhythms (2005) 1.03
A proposed mechanism for the interaction of the segmentation clock and the determination front in somitogenesis. PLoS One (2008) 1.02
HuSiDa--the human siRNA database: an open-access database for published functional siRNA sequences and technical details of efficient transfer into recipient cells. Nucleic Acids Res (2005) 1.02
The segmentation clock in mice: interaction between the Wnt and Notch signalling pathways. J Theor Biol (2007) 0.99
Nonlinear phenomena in contemporary vocal music. J Voice (2004) 0.98
DNA motifs and sequence periodicities. In Silico Biol (2006) 0.98
Quantitative approaches to the study of bistability in the lac operon of Escherichia coli. J R Soc Interface (2008) 0.97
Systematic functional assessment of human protein-protein interaction maps. Genome Inform (2006) 0.97
Biomechanical modeling of register transitions and the role of vocal tract resonators. J Acoust Soc Am (2010) 0.96
Oscillations in cyclical neutropenia: new evidence based on mathematical modeling. J Theor Biol (2003) 0.96
Contribution to the study of periodic chronic myelogenous leukemia. C R Biol (2004) 0.96
Ultrasensitization: switch-like regulation of cellular signaling by transcriptional induction. PLoS Comput Biol (2005) 0.95
Repeats and correlations in human DNA sequences. Phys Rev E Stat Nonlin Soft Matter Phys (2003) 0.94
Bifurcations and chaos in register transitions of excised larynx experiments. Chaos (2008) 0.93
The interplay of cis-regulatory elements rules circadian rhythms in mouse liver. PLoS One (2012) 0.93
Why do cells cycle with a 24 hour period? Genome Inform (2006) 0.92
Systems biologists seek fuller integration of systems biology approaches in new cancer research programs. Cancer Res (2009) 0.92
Biomechanics and control of vocalization in a non-songbird. J R Soc Interface (2008) 0.91
Mechanism for 12 hr rhythm generation by the circadian clock. Cell Rep (2013) 0.91
Human chronotypes from a theoretical perspective. PLoS One (2013) 0.90
Promoter analysis of Mammalian clock controlled genes. Genome Inform (2007) 0.90
A mathematical analysis of the dynamics of prion proliferation. J Theor Biol (2006) 0.90
Visualization of system dynamics using phasegrams. J R Soc Interface (2013) 0.90
High reproducibility of large-gel two-dimensional electrophoresis. Electrophoresis (2004) 0.89
The kinetics of mechanically coupled myosins exhibit group size-dependent regimes. Biophys J (2013) 0.89
Adding self-renewal in committed erythroid progenitors improves the biological relevance of a mathematical model of erythropoiesis. J Theor Biol (2007) 0.88
Dynamics of polymerization shed light on the mechanisms that lead to multiple amyloid structures of the prion protein. Biochim Biophys Acta (2011) 0.88
Dynamics and bistability in a reduced model of the lac operon. Chaos (2004) 0.88
Reverse engineering a hierarchical regulatory network downstream of oncogenic KRAS. Mol Syst Biol (2012) 0.88
Tumor growth rate determines the timing of optimal chronomodulated treatment schedules. PLoS Comput Biol (2010) 0.88
Bifurcations in a white-blood-cell production model. C R Biol (2004) 0.87
Neutrophil dynamics in response to chemotherapy and G-CSF. J Theor Biol (2011) 0.87
Neutrophil dynamics after chemotherapy and G-CSF: the role of pharmacokinetics in shaping the response. J Theor Biol (2012) 0.87
Mathematical model for G-CSF administration after chemotherapy. J Theor Biol (2008) 0.85
Circadian desynchronization. Interface Focus (2010) 0.84
G-CSF treatment of canine cyclical neutropenia: a comprehensive mathematical model. Exp Hematol (2007) 0.84
Prediction of cis-regulatory elements of coregulated genes. Genome Inform (2004) 0.83
Prediction of regulatory transcription factors in T helper cell differentiation and maintenance. Genome Inform (2010) 0.83
Global analysis of host tissue gene expression in the invasive front of colorectal liver metastases. Int J Cancer (2006) 0.83
3D-Image analysis platform monitoring relocation of pluripotency genes during reprogramming. Nucleic Acids Res (2011) 0.83
Understanding cyclical thrombocytopenia: a mathematical modeling approach. J Theor Biol (2007) 0.83
Dissecting the action of an evolutionary conserved non-coding region on renin promoter activity. Nucleic Acids Res (2007) 0.83
HOMGL-comparing genelists across species and with different accession numbers. Bioinformatics (2004) 0.82
Cost-effective G-CSF therapy strategies for cyclical neutropenia: mathematical modelling based hypotheses. J Theor Biol (2005) 0.81
Regulation of mammalian cell cycle progression in the regenerating liver. J Theor Biol (2011) 0.80
IL-2 Expression in Activated Human Memory FOXP3(+) Cells Critically Depends on the Cellular Levels of FOXP3 as Well as of Four Transcription Factors of T Cell Activation. Front Immunol (2012) 0.80
Stable IL-2 decision making by endogenous c-Fos amounts in peripheral memory T-helper cells. J Biol Chem (2012) 0.80
Mathematical model of GAL regulon dynamics in Saccharomyces cerevisiae. J Theor Biol (2011) 0.80
Kinetic mechanisms for overexpression insensitivity and oncogene cooperation. FEBS Lett (2008) 0.80
Recurrent inhibitory dynamics: the role of state-dependent distributions of conduction delay times. J Theor Biol (2002) 0.80
Multistability in an age-structured model of hematopoiesis: Cyclical neutropenia. J Theor Biol (2010) 0.80
A model of the mammalian circadian oscillator including the REV-ERBalpha module. Genome Inform (2004) 0.79
Death of neuronal clusters contributes to variance of age at onset in Huntington's disease. Neurogenetics (2006) 0.79
Graph-theoretical comparison reveals structural divergence of human protein interaction networks. Genome Inform (2007) 0.78