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In these Lecture Notes we aim at clarifying how soft matter physics, and herein notably statistical mechanics and fluid mechanics, can be engaged to understand and manipulate non-equilibrium systems consisting of numerous (microscopic)…

Soft Condensed Matter · Physics 2025-05-27 Jean-François Joanny , Joseph O. Indekeu

Animal cells are both encapsulated and subdivided by lipid bilayer membranes. Beyond just acting as boundaries, these membranes' shapes influence the function of cells and their compartments. Physically, membranes are two-dimensional fluids…

Soft Condensed Matter · Physics 2023-03-23 George Dadunashvili , Timon Idema

Lipid structures exhibit complex and highly dynamic lateral structure; and changes in lipid density and fluidity are believed to play an essential role in membrane targeting and function. The dynamic structure of liquids on the molecular…

Soft Condensed Matter · Physics 2016-12-21 Neda Dadashvand , Christina M. Othon

Eukaryotic cells intrinsically change their shape, by changing the composition of their membrane and by restructuring their underlying cytoskeleton. We present here further studies and extensions of a minimal physical model, describing a…

Soft Condensed Matter · Physics 2023-01-31 Yoav Ravid , Samo Penič , Yuko Mimori-Kiyosue , Shiro Suetsugu , Aleš Iglič , Nir S. Gov

We investigate pores in fluid membranes by molecular dynamics simulations of an amphiphile-solvent mixture, using a molecular coarse-grained model. The amphiphilic membranes self-assemble into a lamellar stack of amphiphilic bilayers…

Soft Condensed Matter · Physics 2009-11-11 Claire Loison , Michel Mareschal , Friederike Schmid

The characterization of the interactions between two fully flexible self-avoiding polymers is one of the classic and most important problems in polymer physics. In this paper we measure these interactions in the presence of active…

Soft Condensed Matter · Physics 2022-04-06 M. C. Gandikota , A. Cacciuto

We establish a biophysical model for the dynamics of lipid vesicles exposed to surfactants. The solubilization of the lipid membrane due to the insertion of surfactant molecules induces a reduction of membrane surface area at almost…

Biological Physics · Physics 2019-04-24 Morgan Chabanon , Padmini Rangamani

Plasma membranes appear as deformable systems wherein molecules are free to move and diffuse giving rise to condensed microdomains (composed of ordered lipids, transmembrane proteins and cholesterol) surrounded by disordered lipid…

Soft Condensed Matter · Physics 2024-09-25 Chiara Bernard , Angelo Rosario Carotenuto , Nicola Maria Pugno , Luca Deseri , Massimiliano Fraldi

A simple kinetic model of a two-component deformable and reactive bilayer is presented. The two differently shaped components are interconverted by a nonequilibrium reaction, and a phenomenological coupling between local composition and…

Soft Condensed Matter · Physics 2009-11-11 Ramon Reigada , Javier Buceta , Katja Lindenberg

A lattice model for active matter is studied numerically, showing that it displays wettings transitions between three distinctive phases when in contact with an impenetrable wall. The particles in the model move persistently, tumbling with…

Soft Condensed Matter · Physics 2017-09-13 Néstor Sepúlveda , Rodrigo Soto

We address the relationship between membrane microheterogeneity and anomalous subdiffusion in cell membranes by carrying out Monte Carlo simulations of two-component lipid membranes. We find that near-critical fluctuations in the membrane…

Biological Physics · Physics 2011-04-29 Jens Ehrig , Eugene P. Petrov , Petra Schwille

Motivated by a long-standing debate concerning the nature and interrelations of surface-tension variables in fluid membranes, we reformulate the thermodynamics of a membrane vesicle as a generic two-dimensional finite system enclosing a…

Soft Condensed Matter · Physics 2012-02-03 Haim Diamant

Collective behaviour in suspensions of microswimmers is often dominated by the impact of long-ranged hydrodynamic interactions. These phenomena include active turbulence, where suspensions of pusher bacteria at sufficient densities exhibit…

Soft Condensed Matter · Physics 2019-08-27 Dora Bardfalvy , Henrik Nordanger , Cesare Nardini , Alexander Morozov , Joakim Stenhammar

We propose a model for the dynamics of a probe embedded in a living cell, where both thermal fluctuations and nonequilibrium activity coexist. The model is based on a confining harmonic potential describing the elastic cytoskeletal matrix,…

Biological Physics · Physics 2015-06-18 É. Fodor , M. Guo , N. S. Gov , P. Visco , D. A. Weitz , F. van Wijland

Biological membranes constantly change their shape in response to external stimuli, and understanding the remodeling and stability of vesicles in heterogeneous environments is therefore of fundamental importance for a range of cellular…

Soft Condensed Matter · Physics 2022-12-20 Håkan Wennerström , Emma Sparr , Joakim Stenhammar

Protein aggregation in cell membrane is vital for the majority of biological functions. Recent experimental results suggest that transmembrane domains of proteins such as $\alpha$-helices and $\beta$-sheets have different structural…

Biological Physics · Physics 2016-01-20 Hamidreza Jafarinia , Atefeh Khoshnood , Mir Abbas Jalali

Cellular membranes exhibit a large variety of shapes, strongly coupled to their function. Many biological processes involve dynamic reshaping of membranes, usually mediated by proteins. This interaction works both ways: while proteins…

Soft Condensed Matter · Physics 2018-06-12 Afshin Vahid , Anđela Šarić , Timon Idema

We discuss the hydrodynamic collective effects due to active protein molecules that are immersed in lipid bilayer membranes and modeled as stochastic force dipoles. We specifically take into account the presence of the bulk solvent which…

Soft Condensed Matter · Physics 2017-05-24 Yuto Hosaka , Kento Yasuda , Ryuichi Okamoto , Shigeyuki Komura

We study the structure and dynamics of the interface separating a passive fluid from a microtubule-based active fluid. Turbulent-like active flows power giant interfacial fluctuations, which exhibit pronounced asymmetry between regions of…

Understanding what happens inside the rippling and dancing surface of a liquid remains one of the great challenges of fluid dynamics. Using molecular dynamics (MD) we can pick apart the interface structure and understand surface tension. In…

Computational Physics · Physics 2020-10-28 Edward R. Smith , Carlos Braga