Logic-based models in systems biology: a predictive and parameter-free network analysis method

Digital clocks: simple Boolean models can quantitatively describe circadian systems

(2012) O. E. Akman et al.   Journal of the Royal Society Interface

A Boolean probabilistic model of metabolic adaptation to oxygen in relation to iron homeostasis and oxidative stress

(2011) Fiona Achcar et al.   BMC Systems Biology

Kinase inhibitors can produce off-target effects and activate linked pathways by retroactivity

(2011) Michelle L Wynn et al.   BMC Systems Biology

Interactome Networks and Human Disease

(2011) Marc Vidal et al.   CELL

Modeling the Cell Cycle: Why Do Certain Circuits Oscillate?

(2011) James E. Ferrell et al.   CELL

Mutant onco-proteins as drug targets: successes, failures, and future prospects

(2011) Frank McCormick   CURRENT OPINION IN GENETICS & DEVELOPMENT

Stimulus-dependent dynamics of p53 in single cells

(2011) E. Batchelor et al.   Molecular Systems Biology

Load-Induced Modulation of Signal Transduction Networks

(2011) P. Jiang et al.   Science Signaling

Logic-Based Models for the Analysis of Cell Signaling Networks

(2010) Melody K. Morris et al.   BIOCHEMISTRY

Attractor analysis of asynchronous Boolean models of signal transduction networks

(2010) Assieh Saadatpour et al.   JOURNAL OF THEORETICAL BIOLOGY

Boolean modeling of transcriptome data reveals novel modes of heterotrimeric G-protein action

(2010) Sona Pandey et al.   Molecular Systems Biology

Simulation of cellular biochemical system kinetics

(2010) Daniel A. Beard   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Oscillations of the p53-Akt Network: Implications on Cell Survival and Death

(2009) Keng Boon Wee et al.   PLoS One

A Dynamic Analysis of IRS-PKR Signaling in Liver Cells: A Discrete Modeling Approach

(2009) Ming Wu et al.   PLoS One

The Logic of EGFR/ErbB Signaling: Theoretical Properties and Analysis of High-Throughput Data

(2009) Regina Samaga et al.   PLoS Computational Biology

Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling

(2009) Bree B. Aldridge et al.   PLoS Computational Biology

ON/OFF and Beyond - A Boolean Model of Apoptosis

(2009) Rebekka Schlatter et al.   PLoS Computational Biology

Synchronous versus asynchronous modeling of gene regulatory networks

(2008) A. Garg et al.   BIOINFORMATICS

Modelling reaction kinetics inside cells

(2008) Ramon Grima et al.   Essays in Biochemistry

Boolean network models of cellular regulation: prospects and limitations

(2008) S. Bornholdt   Journal of the Royal Society Interface

APC Is Essential for Targeting Phosphorylated β-Catenin to the SCFβ-TrCP Ubiquitin Ligase

(2008) YunYun Su et al.   MOLECULAR CELL

Boolean Network Model Predicts Cell Cycle Sequence of Fission Yeast

(2008) Maria I. Davidich et al.   PLoS One

Network model of survival signaling in large granular lymphocyte leukemia

(2008) R. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Hidden Feedback in Signaling Cascades Is Revealed

(2008) Alejandra C. Ventura et al.   PLoS Computational Biology