Combined Model of Intrinsic and Extrinsic Variability for Computational Network Design with Application to Synthetic Biology

The slow-scale linear noise approximation: an accurate, reduced stochastic description of biochemical networks under timescale separation conditions

(2012) Philipp Thomas et al.   BMC Systems Biology

The magnitude and colour of noise in genetic negative feedback systems

(2012) Margaritis Voliotis et al.   NUCLEIC ACIDS RESEARCH

Identifying sources of variation and the flow of information in biochemical networks

(2012) C. G. Bowsher et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Moment-based inference predicts bimodality in transient gene expression

(2012) C. Zechner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Merging Systems Biology with Pharmacodynamics

(2012) R. Iyengar et al.   Science Translational Medicine

Modeling RNA interference in mammalian cells

(2011) Giulia Cuccato et al.   BMC Systems Biology

Cellular Decision Making and Biological Noise: From Microbes to Mammals

(2011) Gábor Balázsi et al.   CELL

How accurate are the nonlinear chemical Fokker-Planck and chemical Langevin equations?

(2011) Ramon Grima et al.   JOURNAL OF CHEMICAL PHYSICS

Synthetic incoherent feedforward circuits show adaptation to the amount of their genetic template

(2011) L. Bleris et al.   Molecular Systems Biology

MicroRNAs can generate thresholds in target gene expression

(2011) Shankar Mukherji et al.   NATURE GENETICS

Origins of regulated cell-to-cell variability

(2011) Berend Snijder et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Systems Pharmacology: Bridging Systems Biology and Pharmacokinetics-Pharmacodynamics (PKPD) in Drug Discovery and Development

(2011) Piet H. van der Graaf et al.   PHARMACEUTICAL RESEARCH

Exploring transcription regulation through cell-to-cell variability

(2011) R. Rinott et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sensitivity, robustness, and identifiability in stochastic chemical kinetics models

(2011) M. Komorowski et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Separating intrinsic from extrinsic fluctuations in dynamic biological systems

(2011) A. Hilfinger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Information Transduction Capacity of Noisy Biochemical Signaling Networks

(2011) R. Cheong et al.   SCIENCE

Computation of Steady-State Probability Distributions in Stochastic Models of Cellular Networks

(2011) Mark Hallen et al.   PLoS Computational Biology

The Role of Incoherent MicroRNA-Mediated Feedforward Loops in Noise Buffering

(2011) Matteo Osella et al.   PLoS Computational Biology

Using a Single Fluorescent Reporter Gene to Infer Half-Life of Extrinsic Noise and Other Parameters of Gene Expression

(2010) Michał Komorowski et al.   BIOPHYSICAL JOURNAL

Formulas for intrinsic noise evaluation in oscillatory genetic networks

(2010) Yohei Ito et al.   JOURNAL OF THEORETICAL BIOLOGY

Fundamental limits on the suppression of molecular fluctuations

(2010) Ioannis Lestas et al.   NATURE

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

Optimal Feedback Strength for Noise Suppression in Autoregulatory Gene Networks

(2009) Abhyudai Singh et al.   BIOPHYSICAL JOURNAL

Bayesian inference of biochemical kinetic parameters using the linear noise approximation

(2009) Michał Komorowski et al.   BMC BIOINFORMATICS

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Moment-closure approximations for mass-action models

(2009) C.S. Gillespie   IET Systems Biology

Stochastic modelling for quantitative description of heterogeneous biological systems

(2009) Darren J. Wilkinson   NATURE REVIEWS GENETICS

The second wave of synthetic biology: from modules to systems

(2009) Priscilla E. M. Purnick et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Negative autoregulation linearizes the dose-response and suppresses the heterogeneity of gene expression

(2009) D. Nevozhay et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nature, Nurture, or Chance: Stochastic Gene Expression and Its Consequences

(2008) Arjun Raj et al.   CELL

Colored extrinsic fluctuations and stochastic gene expression

(2008) Vahid Shahrezaei et al.   Molecular Systems Biology