Three-dimensional stochastic simulation of chemoattractant-mediated excitability in cells

Coordinating cell polarization and morphogenesis through mechanical feedback

(2021) Samhita P. Banavar et al.   PLoS Computational Biology

Mechanistic insights into actin-driven polarity site movement in yeast

(2020) Debraj Ghose et al.   MOLECULAR BIOLOGY OF THE CELL

How cortical waves drive fission of motile cells

(2020) Sven Flemming et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Membrane Tension Can Enhance Adaptation to Maintain Polarity of Migrating Cells

(2020) Cole Zmurchok et al.   BIOPHYSICAL JOURNAL

An Excitable Ras/PI3K/ERK Signaling Network Controls Migration and Oncogenic Transformation in Epithelial Cells

(2020) Huiwang Zhan et al.   DEVELOPMENTAL CELL

Analysis of barotactic and chemotactic guidance cues on directional decision-making ofDictyostelium discoideumcells in confined environments

(2020) Yuri Belotti et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wave patterns organize cellular protrusions and control cortical dynamics

(2019) Yuchuan Miao et al.   Molecular Systems Biology

Chemical Kinetics Roots and Methods to Obtain the Probability Distribution Function Evolution of Reactants and Products in Chemical Networks Governed by a Master Equation

(2019) José-Luis Muñoz-Cobo et al.   Entropy

Collective cell migration: general themes and new paradigms

(2019) Caren Norden et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

A neutrophil-centric view of chemotaxis

(2019) Melina Michael et al.   Essays in Biochemistry

Cell confinement reveals a branched-actin independent circuit for neutrophil polarity

(2019) Brian R. Graziano et al.   PLOS BIOLOGY

A minimal computational model for three-dimensional cell migration

(2019) Yuansheng Cao et al.   Journal of the Royal Society Interface

Insight from the maximal activation of the signal transduction excitable network inDictyostelium discoideum

(2018) Marc Edwards et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Particle-based simulations of polarity establishment reveal stochastic promotion of Turing pattern formation

(2018) Michael Pablo et al.   PLoS Computational Biology

The effect of cell geometry on polarization in budding yeast

(2018) Michael Trogdon et al.   PLoS Computational Biology

Modeling random crawling, membrane deformation and intracellular polarity of motile amoeboid cells

(2018) Sergio Alonso et al.   PLoS One

Mutually inhibitory Ras-PI(3,4)P2 feedback loops mediate cell migration

(2018) Xiaoguang Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mutual inhibition between PTEN and PIP3 generates bistability for polarity in motile cells

(2018) Satomi Matsuoka et al.   Nature Communications

Coupled excitable Ras and F-actin activation mediates spontaneous pseudopod formation and directed cell movement

(2017) Peter J. M. van Haastert et al.   MOLECULAR BIOLOGY OF THE CELL

Altering the threshold of an excitable signal transduction network changes cell migratory modes

(2017) Yuchuan Miao et al.   NATURE CELL BIOLOGY

A framework for discrete stochastic simulation on 3D moving boundary domains

(2016) Brian Drawert et al.   JOURNAL OF CHEMICAL PHYSICS

Chemical and mechanical stimuli act on common signal transduction and cytoskeletal networks

(2016) Yulia Artemenko et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Model for Direction Sensing in Dictyostelium discoideum: Ras Activity and Symmetry Breaking Driven by a Gβγ-Mediated, Gα2-Ric8 -- Dependent Signal Transduction Network

(2016) Yougan Cheng et al.   PLoS Computational Biology

Antithetic Integral Feedback Ensures Robust Perfect Adaptation in Noisy Biomolecular Networks

(2016) Corentin Briat et al.   Cell Systems

The relationship between stochastic and deterministic quasi-steady state approximations

(2015) Jae Kyoung Kim et al.   BMC Systems Biology

Accuracy of the Michaelis-Menten approximation when analysing effects of molecular noise

(2015) M. J. Lawson et al.   Journal of the Royal Society Interface

Dendritic spine geometry can localize GTPase signaling in neurons

(2015) Samuel A. Ramirez et al.   MOLECULAR BIOLOGY OF THE CELL

Excitable Signal Transduction Induces Both Spontaneous and Directional Cell Asymmetries in the Phosphatidylinositol Lipid Signaling System for Eukaryotic Chemotaxis

(2014) Masatoshi Nishikawa et al.   BIOPHYSICAL JOURNAL

A PIP5 Kinase Essential for Efficient Chemotactic Signaling

(2014) Louise Fets et al.   CURRENT BIOLOGY

Comparison of adaptation motifs: temporal, stochastic and spatial responses

(2014) Pablo A. Iglesias et al.   IET Systems Biology

Leukocyte Migration into Inflamed Tissues

(2014) Sussan Nourshargh et al.   IMMUNITY

The complex chemical Langevin equation

(2014) David Schnoerr et al.   JOURNAL OF CHEMICAL PHYSICS

Evolutionarily conserved coupling of adaptive and excitable networks mediates eukaryotic chemotaxis

(2014) Ming Tang et al.   Nature Communications

An excitable signal integrator couples to an idling cytoskeletal oscillator to drive cell migration

(2013) Chuan-Hsiang Huang et al.   NATURE CELL BIOLOGY

A Continuum Model of Actin Waves in Dictyostelium discoideum

(2013) Varunyu Khamviwath et al.   PLoS One

Interaction of Motility, Directional Sensing, and Polarity Modules Recreates the Behaviors of Chemotaxing Cells

(2013) Changji Shi et al.   PLoS Computational Biology

URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries

(2012) Brian Drawert et al.   BMC Systems Biology

Membrane Tension Maintains Cell Polarity by Confining Signals to the Leading Edge during Neutrophil Migration

(2012) Andrew R. Houk et al.   CELL

Regimes of wave type patterning driven by refractory actin feedback: transition from static polarization to dynamic wave behaviour

(2012) W R Holmes et al.   PHYSICAL BIOLOGY

Noise effects in nonlinear biochemical signaling

(2012) Neda Bostani et al.   PHYSICAL REVIEW E

An Excitable Cortex and Memory Model Successfully Predicts New Pseudopod Dynamics

(2012) Robert M. Cooper et al.   PLoS One

Coupling actin flow, adhesion, and morphology in a computational cell motility model

(2012) D. Shao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Incoherent Feedforward Control Governs Adaptation of Activated Ras in a Eukaryotic Chemotaxis Pathway

(2012) K. Takeda et al.   Science Signaling

How Cells Integrate Complex Stimuli: The Effect of Feedback from Phosphoinositides and Cell Shape on Cell Polarization and Motility

(2012) Athanasius F. M. Marée et al.   PLoS Computational Biology

Cell Shape Dynamics: From Waves to Migration

(2012) Meghan K. Driscoll et al.   PLoS Computational Biology

Cancer Invasion and the Microenvironment: Plasticity and Reciprocity

(2011) Peter Friedl et al.   CELL

Cellular Decision Making and Biological Noise: From Microbes to Mammals

(2011) Gábor Balázsi et al.   CELL

Directed cell invasion and migration during metastasis

(2011) Jose Javier Bravo-Cordero et al.   CURRENT OPINION IN CELL BIOLOGY

Stochastic ordinary differential equations in applied and computational mathematics

(2011) D. J. Higham   IMA JOURNAL OF APPLIED MATHEMATICS

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

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

Chemotaxis: A Feedback-Based Computational Model Robustly Predicts Multiple Aspects of Real Cell Behaviour

(2011) Matthew P. Neilson et al.   PLOS BIOLOGY

“TORCing” Neutrophil Chemotaxis

(2010) Pascale G. Charest et al.   DEVELOPMENTAL CELL

A Ras Signaling Complex Controls the RasC-TORC2 Pathway and Directed Cell Migration

(2010) Pascale G. Charest et al.   DEVELOPMENTAL CELL

Involvement of the Cytoskeleton in Controlling Leading-Edge Function during Chemotaxis

(2010) Susan Lee et al.   MOLECULAR BIOLOGY OF THE CELL

Transient Localized Patterns in Noise-Driven Reaction-Diffusion Systems

(2010) Inbal Hecht et al.   PHYSICAL REVIEW LETTERS

Cells navigate with a local-excitation, global-inhibition-biased excitable network

(2010) Y. Xiong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Open Model of Actin Dendritic Nucleation

(2009) Jonathon A. Ditlev et al.   BIOPHYSICAL JOURNAL

The Three-Dimensional Dynamics of Actin Waves, a Model of Cytoskeletal Self-Organization

(2009) Till Bretschneider et al.   BIOPHYSICAL JOURNAL

Defining Network Topologies that Can Achieve Biochemical Adaptation

(2009) Wenzhe Ma et al.   CELL

Mechanisms guiding primordial germ cell migration: strategies from different organisms

(2009) Brian E. Richardson et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Wave-Pinning and Cell Polarity from a Bistable Reaction-Diffusion System

(2008) Yoichiro Mori et al.   BIOPHYSICAL JOURNAL

PIP3-Independent Activation of TorC2 and PKB at the Cell's Leading Edge Mediates Chemotaxis

(2008) Yoichiro Kamimura et al.   CURRENT BIOLOGY

Navigating through models of chemotaxis

(2008) Pablo A Iglesias et al.   CURRENT OPINION IN CELL BIOLOGY

Modeling and Simulating Chemical Reactions

(2008) Desmond J. Higham   SIAM REVIEW