Stochastic dynamics of reactive and living systems
External member: O. Bénichou (LPTMC)
The study of out-of-equilibrium processes, and its application to the modeling of different physicochemical systems, are at the center of the team's research. Living cells are the most prominent example of such physicochemical systems. We combine the development of new analytical methods and the modeling of real systems, from the single particle scale (random walks, (bio) chemical reactivity and in particular transcription and search for a target) to the level of collective behavior (motility and cellular polarization).
For more information, see the personnal pages of group members.
Publications
2019
| ⊞ | Diffusion through Nanopores in Connected Lipid Bilayer Networks - Phys. Rev. Lett. |
2018
| ⊞ | Quantifying the impact of a periodic presence of antimicrobial on resistance evolution in a homogeneous microbial population of fixed size - Journal of Theoretical Biology |
| ⊞ | Inferring interaction partners from protein sequences using mutual information - PLoS Computational Biology |
| ⊞ | pH sensing by lipids in membranes: The fundamentals of pH-driven migration, polarization and deformations of lipid bilayer assemblies - Biochimica et Biophysica Acta - Biomembranes |
| ⊞ | Universal first-passage statistics in aging media - Phys. Rev. E |
| ⊞ | Integrating Physical and Molecular Insights on Immune Cell Migration - Trends Immunol. |
| ⊞ | Directed Flow of Micromotors through Alignment Interactions with Micropatterned Ratchets - ACS Nano |
| ⊞ | Ependymal cilia beating induces an actin network to protect centrioles against shear stress - Nat. Commun. |
| ⊞ | Nonequilibrium Fluctuations and Enhanced Diffusion of a Driven Particle in a Dense Environment - Phys. Rev. Lett. |
| ⊞ | Optimized Diffusion of Run-and-Tumble Particles in Crowded Environments - Physical Review Letters |
2017
| ⊞ | Analysis of a nonlocal and nonlinear fokker planck model for cell crawling migration - SIAM Journal on Applied Mathematics |
| ⊞ | Forces in inhomogeneous open active-particle systems - PHYSICAL REVIEW E |
| ⊞ | Generalized Archimedes' principle in active fluids - PHYSICAL REVIEW E |
| ⊞ | Myofibril contraction and crosslinking drive nuclear movement to the periphery of skeletal muscle - NATURE CELL BIOLOGY |
| ⊞ | Bacterial biofilm under flow: First a physical struggle to stay, then a matter of breathing - PLOS ONE |
| URL | Full text PDF | Bibtex | doi:10.1371/journal.pone.0175197 |
| ⊞ | Mean first-passage time of an anisotropic diffusive searcher - JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL |
2016
| ⊞ | Deterministic patterns in cell motility - Nature Physics |
| ⊞ | Inferring interaction partners from protein sequences - PNAS |
| URL | Full text PDF | Bibtex | doi:10.1073/pnas.1606762113 |
| ⊞ | Single cell rigidity sensing: A complex relationship between focal adhesion dynamics and large-scale actin cytoskeleton remodeling - CELL ADHESION \& MIGRATION |
| ⊞ | Active Particles with Soft and Curved Walls: Equation of State, Ratchets, and Instabilities - PHYSICAL REVIEW LETTERS |
| ⊞ | Optimal search strategies of run-and-tumble walks - PHYSICAL REVIEW E |
| ⊞ | ESCRT III repairs nuclear envelope ruptures during cell migration to limit DNA damage and cell death - SCIENCE |
| ⊞ | A Predictive Model for Yeast Cell Polarization in Pheromone Gradients - PLOS COMPUTATIONAL BIOLOGY |
| ⊞ | Nonlinear response and emerging nonequilibrium microstructures for biased diffusion in confined crowded environments - PHYSICAL REVIEW E |
| ⊞ | Cortical Flow-Driven Shapes of Non-Adherent Cells - BIOPHYSICAL JOURNAL |
| ⊞ | Actin flows in cell migration: from locomotion and polarity to trajectories - CURRENT OPINION IN CELL BIOLOGY |
| ⊞ | Cortical Flow-Driven Shapes of Nonadherent Cells - PHYSICAL REVIEW LETTERS |
| ⊞ | F-actin mechanics control spindle centring in the mouse zygote - NATURE COMMUNICATIONS |
| ⊞ | Innate control of actin nucleation determines two distinct migration behaviours in dendritic cells - NATURE CELL BIOLOGY |
2015
| ⊞ | Ratchetaxis: Long-Range Directed Cell Migration by Local Cues - TRENDS IN CELL BIOLOGY |
| ⊞ | Mean exit time for surface-mediated diffusion: spectral analysis and asymptotic behavior - ANALYSIS AND MATHEMATICAL PHYSICS |
| ⊞ | Non-Markovian closure kinetics of flexible polymers with hydrodynamic interactions - JOURNAL OF CHEMICAL PHYSICS |
| ⊞ | Diffusion and Subdiffusion of Interacting Particles on Comblike Structures - PHYSICAL REVIEW LETTERS |
| ⊞ | Contact Kinetics in Fractal Macromolecules - PHYSICAL REVIEW LETTERS |
| ⊞ | Contact Kinetics in Fractal Macromolecules - PHYSICAL REVIEW LETTERS |
| ⊞ | Distribution of the position of a driven tracer in a hardcore lattice gas - JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT |
| ⊞ | Distribution of the position of a driven tracer in a hardcore lattice gas - JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT |
| ⊞ | Cover times of random searches - NATURE PHYSICS |
| ⊞ | The cell ratchet: Interplay between efficient protrusions and adhesion determines cell motion - CELL ADHESION & MIGRATION |
| ⊞ | Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells - NATURE COMMUNICATIONS |
| ⊞ | Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher - NATURE COMMUNICATIONS |
| ⊞ | Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells - NATURE COMMUNICATIONS |
| ⊞ | Adaptive rheology and ordering of cell cytoskeleton govern matrix rigidity sensing - NATURE COMMUNICATIONS |
| ⊞ | Mean first-passage times in confined media: from Markovian to non-Markovian processes - JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL |
| ⊞ | Actin Flows Mediate a Universal Coupling between Cell Speed and Cell Persistence - Cell |
| URL | Full text PDF | Bibtex | doi:10.1016/j.cell.2015.01.056 |
| ⊞ | Working Together: Spatial Synchrony in the Force and Actin Dynamics of Podosome First Neighbors - ACS NANO |
| ⊞ | Active diffusion positions the nucleus in mouse oocytes - NATURE CELL BIOLOGY |
| ⊞ | Active diffusion positions the nucleus in mouse oocytes - NATURE CELL BIOLOGY |
| ⊞ | Confinement and Low Adhesion Induce Fast Amoeboid Migration of Slow Mesenchymal Cells - Cell |
| URL | Full text PDF | Bibtex | doi:10.1016/j.cell.2015.01.007 |
| ⊞ | Liposome Adhesion Generates Contractile Traction Stresses - BIOPHYSICAL JOURNAL |
| ⊞ | Exit Time Distribution in Spherically Symmetric Two-Dimensional Domains - JOURNAL OF STATISTICAL PHYSICS |
| ⊞ | A narrow window of cortical tension guides asymmetric spindle positioning in the mouse oocyte - NATURE COMMUNICATIONS |
2014
| ⊞ | Microscopic Theory for Negative Differential Mobility in Crowded Environments - PHYSICAL REVIEW LETTERS |
| ⊞ | Cyclization kinetics of Gaussian semiflexible polymer chains - PHYSICAL REVIEW E |
| ⊞ | Protrusion force microscopy reveals oscillatory force generation and mechanosensing activity of human macrophage podosomes - NATURE COMMUNICATIONS |
| ⊞ | Cells as Active Particles in Asymmetric Potentials: Motility under External Gradients - BIOPHYSICAL JOURNAL |
| ⊞ | Velocity Anomaly of a Driven Tracer in a Confined Crowded Environment - PHYSICAL REVIEW LETTERS |
| ⊞ | Gaussian semiflexible rings under angular and dihedral restrictions - JOURNAL OF CHEMICAL PHYSICS |
| ⊞ | Protrusion Fluctuations Direct Cell Motion - BIOPHYSICAL JOURNAL |
| ⊞ | From first-passage times of random walks in confinement to geometry-controlled kinetics - PHYSICS REPORTS-REVIEW SECTION OF PHYSICS LETTERS |
| ⊞ | Mean cover time of one-dimensional persistent random walks - PHYSICAL REVIEW E |
| ⊞ | Accelerating search kinetics by following boundaries - PHYSICAL REVIEW LETTERS |
| ⊞ | Active polar fluid flow in finite droplets - EUROPEAN PHYSICAL JOURNAL E |
| ⊞ | Liposome adhesion generates traction stress - NATURE PHYSICS |
| ⊞ | Splitting probabilities and interfacial territory covered by two-dimensional and three-dimensional surface-mediated diffusion - PHYSICAL REVIEW E |
| ⊞ | First-Passage Statistics for Random Walks in Bounded Domains - FIRST-PASSAGE PHENOMENA AND THEIR APPLICATIONS |
| ⊞ | First-Passage Times of Intermittent Random Walks - FIRST-PASSAGE PHENOMENA AND THEIR APPLICATIONS |
2013
| ⊞ | Geometry-Induced Superdiffusion in Driven Crowded Systems - PHYSICAL REVIEW LETTERS |
| ⊞ | Cell-sized liposomes reveal how actomyosin cortical tension drives shape change (vol 110, pg 16456, 2013) - PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA |
| ⊞ | Geometric Friction Directs Cell Migration - PHYSICAL REVIEW LETTERS |
| ⊞ | Migration of dendritic cells: physical principles, molecular mechanisms, and functional implications - IMMUNOLOGICAL REVIEWS |
| ⊞ | Cell-sized liposomes reveal how actomyosin cortical tension drives shape change - PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA |
| ⊞ | A soft cortex is essential for asymmetric spindle positioning in mouse oocytes - NATURE CELL BIOLOGY |
| ⊞ | Active Transport in Dense Diffusive Single-File Systems - PHYSICAL REVIEW LETTERS |
| ⊞ | The shadow principle: An optimal survival strategy for a prey chased by random predators - PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS |
| ⊞ | Fluctuations and correlations of a driven tracer in a hard-core lattice gas - PHYSICAL REVIEW E |
| ⊞ | Reactive conformations and non-Markovian reaction kinetics of a Rouse polymer searching for a target in confinement - PHYSICAL REVIEW E |
| ⊞ | Reactive conformations and non-Markovian cyclization kinetics of a Rouse polymer - JOURNAL OF CHEMICAL PHYSICS |
| ⊞ | Active gel model of amoeboid cell motility - NEW JOURNAL OF PHYSICS |
2012
| ⊞ | Spatial log-periodic oscillations of first-passage observables in fractals - PHYSICAL REVIEW E |
| ⊞ | Exact mean exit time for surface-mediated diffusion - PHYSICAL REVIEW E |
| ⊞ | Reaction kinetics of A plus B -> 0 - JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL |
| ⊞ | Front acceleration by dynamic selection in Fisher population waves - PHYSICAL REVIEW E |
| ⊞ | Taylor dispersion with adsorption and desorption - PHYSICAL REVIEW E |
| ⊞ | Invasion fronts with variable motility: Phenotype selection, spatial sorting and wave acceleration - COMPTES RENDUS MATHEMATIQUE |
| ⊞ | Non-Markovian polymer reaction kinetics - NATURE CHEMISTRY |
| ⊞ | Kinetics of Active Surface-Mediated Diffusion in Spherically Symmetric Domains - JOURNAL OF STATISTICAL PHYSICS |
| ⊞ | Interfacial territory covered by surface-mediated diffusion - PHYSICAL REVIEW E |
| ⊞ | Geometry-Induced Bursting Dynamics in Gene Expression - BIOPHYSICAL JOURNAL |
| ⊞ | Evidence of a large-scale mechanosensing mechanism for cellular adaptation to substrate stiffness - PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA |
| ⊞ | ANALYSIS OF A NONLOCAL MODEL FOR SPONTANEOUS CELL POLARIZATION - SIAM JOURNAL ON APPLIED MATHEMATICS |
| ⊞ | Non-Gaussianity and dynamical trapping in locally activated random walks - PHYSICAL REVIEW E |
| ⊞ | Optimizing Persistent Random Searches - PHYSICAL REVIEW LETTERS |
| ⊞ | Classes of fast and specific search mechanisms for proteins on DNA - REPORTS ON PROGRESS IN PHYSICS |
2011
| ⊞ | Encounter distribution of two random walkers on a finite one-dimensional interval - JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL |
