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

Many roads to symmetry breaking: molecular mechanisms and theoretical models of yeast cell polarity

(2017) Andrew B. Goryachev et al.   MOLECULAR BIOLOGY OF THE CELL

Testing the limits of gradient sensing

(2017) Vinal Lakhani et al.   PLoS Computational Biology

Parallel Actin-Independent Recycling Pathways Polarize Cdc42 in Budding Yeast

(2016) Benjamin Woods et al.   CURRENT BIOLOGY

Numerical Approach to Spatial Deterministic-Stochastic Models Arising in Cell Biology

(2016) James C. Schaff et al.   PLoS Computational Biology

Role of Polarized G Protein Signaling in Tracking Pheromone Gradients

(2015) Allison W. McClure et al.   DEVELOPMENTAL CELL

Theory of bi-molecular association dynamics in 2D for accurate model and experimental parameterization of binding rates

(2015) Osman N. Yogurtcu et al.   JOURNAL OF CHEMICAL PHYSICS

Dendritic spine geometry can localize GTPase signaling in neurons

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

Inhibitory GEF Phosphorylation Provides Negative Feedback in the Yeast Polarity Circuit

(2014) Chun-Chen Kuo et al.   CURRENT BIOLOGY

Positive feedback can lead to dynamic nanometer-scale clustering on cell membranes

(2014) Martijn Wehrens et al.   JOURNAL OF CHEMICAL PHYSICS

Parameter-space topology of models for cell polarity

(2014) Philipp Khuc Trong et al.   NEW JOURNAL OF PHYSICS

Modeling large-scale dynamic processes in the cell: polarization, waves, and division

(2014) David Sept et al.   QUARTERLY REVIEWS OF BIOPHYSICS

Quantitative Analysis of Membrane Trafficking in Regulation of Cdc42 Polarity

(2014) Leah J. Watson et al.   TRAFFIC

Simulation tools for particle-based reaction-diffusion dynamics in continuous space

(2014) Johannes Schöneberg et al.   BMC Biophysics

A Comparison of Bimolecular Reaction Models for Stochastic Reaction–Diffusion Systems

(2013) I. C. Agbanusi et al.   BULLETIN OF MATHEMATICAL BIOLOGY

Stochastic Pattern Formation and Spontaneous Polarisation: The Linear Noise Approximation and Beyond

(2013) Alan J. McKane et al.   BULLETIN OF MATHEMATICAL BIOLOGY

Multiscale Reaction-Diffusion Algorithms: PDE-Assisted Brownian Dynamics

(2013) Benjamin Franz et al.   SIAM JOURNAL ON APPLIED MATHEMATICS

Establishment of a robust single axis of cell polarity by coupling multiple positive feedback loops

(2013) Tina Freisinger et al.   Nature Communications

GDI-Mediated Cell Polarization in Yeast Provides Precise Spatial and Temporal Control of Cdc42 Signaling

(2013) Ben Klünder et al.   PLoS Computational Biology

Negative Feedback Enhances Robustness in the Yeast Polarity Establishment Circuit

(2012) Audrey S. Howell et al.   CELL

Tracking Shallow Chemical Gradients by Actin-Driven Wandering of the Polarization Site

(2012) Jayme M. Dyer et al.   CURRENT BIOLOGY

Particle dynamics simulations of Turing patterns

(2012) P. Dziekan et al.   JOURNAL OF CHEMICAL PHYSICS

Lost in presumption: stochastic reactions in spatial models

(2012) Anel Mahmutovic et al.   NATURE METHODS

Computational modeling of cellular signaling processes embedded into dynamic spatial contexts

(2012) Bastian R Angermann et al.   NATURE METHODS

Do the internal fluctuations blur or enhance axial segmentation?

(2011) A. Lemarchand et al.   EPL

Analysis of Brownian Dynamics Simulations of Reversible Bimolecular Reactions

(2011) Jana Lipková et al.   SIAM JOURNAL ON APPLIED MATHEMATICS

A Density-Dependent Switch Drives Stochastic Clustering and Polarization of Signaling Molecules

(2011) Alexandra Jilkine et al.   PLoS Computational Biology

PALM imaging and cluster analysis of protein heterogeneity at the cell surface

(2010) Dylan M. Owen et al.   Journal of Biophotonics

Stochastic reaction-diffusion kinetics in the microscopic limit

(2010) D. Fange et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

On the Use of Ripley's K-Function and Its Derivatives to Analyze Domain Size

(2009) Maria A. Kiskowski et al.   BIOPHYSICAL JOURNAL

Singularity in Polarization: Rewiring Yeast Cells to Make Two Buds

(2009) Audrey S. Howell et al.   CELL

Symmetry Breaking in the Life Cycle of the Budding Yeast

(2009) B. D. Slaughter et al.   Cold Spring Harbor Perspectives in Biology

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

(2008) Yoichiro Mori et al.   BIOPHYSICAL JOURNAL

Dynamics of Cdc42 network embodies a Turing-type mechanism of yeast cell polarity

(2008) Andrew B. Goryachev et al.   FEBS LETTERS

On the spontaneous emergence of cell polarity

(2008) Steven J. Altschuler et al.   NATURE

Fast Monte Carlo Simulation Methods for Biological Reaction-Diffusion Systems in Solution and on Surfaces

(2008) Rex A. Kerr et al.   SIAM JOURNAL ON SCIENTIFIC COMPUTING