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Motivated to understand the behavior of biological filaments interacting with membranes of various types, we study a theoretical model for the shape and thermodynamics of intrinsically-helical filaments bound to curved membranes. We show…
Cilia and flagella are essential building blocks for biological fluid transport and locomotion at the micron scale. They often beat in synchrony and may transition between different synchronization modes in the same cell type. Here, we…
We present the spectral analysis of three-dimensional dynamics of an elastic filament in a shear flow of a viscous fluid at a low Reynolds number in the absence of Brownian motion. The elastica model is used. The fiber initially is almost…
Consider an inextensible closed filament immersed in a 2D Stokes fluid. Given a force density $\mathbf{F}$ defined on this filament, we consider the problem of determining the tension $\sigma$ on this filament that ensures the filament is…
We present a numerical study on the rheology of semi-dilute and concentrated filament suspensions of different bending stiffness and Reynolds number, with the immersed boundary method used to couple the fluid and solid. The filaments are…
Motivated by diverse phenomena in cellular biophysics, including bacterial flagellar motion and DNA transcription and replication, we study the overdamped nonlinear dynamics of a rotationally forced filament with twist and bend elasticity.…
Active systems of self-propelled agents, e.g., birds, fish, and bacteria, can organize their collective motion into myriad autonomous behaviors. Ubiquitous in nature and across length scales, such phenomena are also amenable to artificial…
We present a continuum level analytical model of a droplet of active contractile fluid consisting of filaments and motors. We calculate the steady state flows that result from a splayed polarisation of the filaments. We account for the…
Many of the cell membrane vital functions are achieved by the self-organization of the proteins and biopolymers embedded in it. The protein dynamics are in part determined by its drag. A large number of these proteins can polymerize to form…
To rotate continuously without jamming, the flagellar filaments of bacteria need to be locked in phase. While several models have been proposed for eukaryotic flagella, the synchronization of bacterial flagella is less well understood.…
In nature, many unicellular organisms are able to swim with the help of beating filaments, where local energy input leads to cooperative undulatory beating motion. Here, we investigate by employing reinforcement learning how undulatory…
We study the dynamics of an inextensible, closed interface subject to bending forces and immersed in a two-dimensional and incompressible Stokes fluid. We formulate the problem as a boundary integral equation in terms of the tangent angle…
This article presents a multi-physics methodology for the numerical simulation of physical systems that involve the non-linear interaction of multi-phase reactive fluids and elastoplastic solids, inducing high strain-rates and high…
This paper presents a new representation of curve dynamics, with applications to vortex filaments in fluid dynamics. Instead of representing these filaments with explicit curve geometry and Lagrangian equations of motion, we represent…
Dynamic organization of the cytoskeletal filaments and rod-like proteins in the cell membrane and other biological interfaces occurs in many cellular processes. Previous modeling studies have considered the dynamics of a single rod on fluid…
The presence of a nearby boundary is likely to be important in the life cycle and evolution of motile flagellate bacteria. This has led many authors to employ numerical simulations to model near-surface bacterial motion and compute…
Living organisms employ diverse strategies to navigate confined environments. Inspired by translocation observations on California blackworms (\textit{Lumbriculus variegatus}), we combine biological experiments and active-polymer…
We create a mechanism inspired by bacterial swimmers, featuring two flexible flagella with individual control over rotation speed and direction in viscous fluid environments. Using readily available materials, we design and fabricate…
The present habilitation thesis in theoretical biological physics addresses two central dynamical processes in cells and organisms: (i) active motility and motility control and (ii) self-organized pattern formation. The unifying theme is…
An interfacial regularized Stokeslet scheme is presented to predict the motion of solid bodies (e.g. proteins or gel-phase domains) embedded within flowing lipid bilayer membranes. The approach provides a numerical route to calculate…