arXiv subjects

Debasish Chaudhuri

Publications and source records attributed to Debasish Chaudhuri.

At least 37 records · Page 2Linked to original sources

arXiv2024

Impact of chirality on active Brownian particle: Exact moments in two and three dimensions

In this work, we investigate the effects of chirality, accounting for translational diffusion, on active Brownian particles in two and three dimensions. Despite the inherent complexity in solving the Fokker-Planck equation, we demonstrate a Laplace transform method for precisely calculating the temporal evolution of various dynamic moments. Our analysis yields explicit expressions for multiple moments, such as the second and fourth moments of displacement, revealing the impact of persistence and chirality. These moments exhibit oscillatory behaviour, and excess kurtosis indicates deviations from the Gaussian distribution during intermediate time intervals.

cond-mat.stat-mech↗

arXiv2024

Exact moments for trapped active particles: inertial impact on steady-state properties and re-entrance

In this study, we investigate the behavior of inertial active Brownian particles in a $d$-dimensional harmonic trap in the presence of translational diffusion. While the solution of the Fokker-Planck equation is generally challenging, it can be utilized to compute the exact time evolution of all time-dependent dynamical moments using a Laplace transform approach. We present the explicit form for several moments of position and velocity in $d$-dimensions. An interplay of time scales assures that the effective diffusivity and steady-state kinetic temperature depend on both inertia and trap strength, unlike passive systems. We present detailed `phase diagrams' using kurtosis of velocity and position showing possibilities of re-entrance.

cond-mat.stat-mech↗

arXiv2024

Dynamical crossovers and correlations in a harmonic chain of active particles

We explore the dynamics of a tracer in an active particle harmonic chain, investigating the influence of interactions. Our analysis involves calculating mean-squared displacements (MSD) and space-time correlations through Green's function techniques and numerical simulations. Depending on chain characteristics, i.e., different time scales determined by interaction stiffness and persistence of activity, tagged-particle MSD exhibit ballistic, diffusive, and single-file diffusion (SFD) scaling over time, with crossovers explained by our analytic expressions. Our results reveal transitions in bulk particle displacement distributions from an early-time bimodal to late-time Gaussian, passing through regimes of unimodal distributions with finite support and negative excess kurtosis and longer-tailed distributions with positive excess kurtosis. The distributions exhibit data collapse, aligning with ballistic, diffusive, and SFD scaling in the appropriate time regimes. However, at much longer times, the distributions become Gaussian. Finally, we derive expressions for steady-state static and dynamic two-point displacement correlations, consistent with simulations and converging to equilibrium results for small persistence. Additionally, the two-time stretch correlation extends to longer separation at later times, while the autocorrelation for the bulk particle shows diffusive scaling beyond the persistence time.

cond-mat.stat-mech↗

arXiv2023

How reciprocity impacts ordering and phase separation in active nematics?

Active nematics undergo spontaneous symmetry breaking and show phase separation instability. Within the prevailing notion that macroscopic properties depend only on symmetries and conservation laws, different microscopic models are used out of convenience. Here, we test this notion carefully by analyzing three different microscopic models of apolar active nematics. They share the same symmetry but differ in implementing reciprocal or non-reciprocal interactions, including a Vicsek-like implementation. We show how such subtle differences in microscopic realization determine if the ordering transition is continuous or first order. Despite the difference in the type of phase transition, all three models exhibit fluctuation-dominated phase separation and quasi-long-range order in the nematic phase.

cond-mat.soft↗

arXiv2023

Exact moments and re-entrant transitions in the inertial dynamics of active Brownian particles

In this study, we investigate the behavior of free inertial Active Brownian Particles (ABP) in the presence of thermal noise. While finding a closed-form solution for the joint distribution of positions, orientations, and velocities using the Fokker-Planck equation is generally challenging, we utilize a Laplace transform method to obtain the exact temporal evolution of all dynamical moments in arbitrary dimensions. Our expressions in $d$ dimensions reveal that inertia significantly impacts steady-state kinetic temperature and swim pressure while leaving the late-time diffusivity unchanged. Notably, as a function of activity and inertia, the steady-state velocity distribution exhibits a remarkable re-entrant crossover from passive Gaussian to active non-Gaussian behaviors. We construct a corresponding phase diagram using the exact expression of the $d$-dimensional kurtosis. Our analytic expressions describe steady states and offer insights into time-dependent crossovers observed in moments of velocity and displacement. Our calculations can be extended to predict up to second-order moments for run-and-tumble particles (RTP) and the active Ornstein-Uhlenbeck process (AOUP). Additionally, the kurtosis shows differences from AOUP.

cond-mat.stat-mech↗

arXiv2023

Cooperation and competition in the collective drive by motor proteins: Mean active force, fluctuations, and self-load

We consider the dynamics of a bio-filament under the collective drive of motor proteins. They are attached irreversibly to a substrate and undergo stochastic attachment-detachment with the filament to produce a directed force on it. We establish the dependence of the mean directed force and force correlations on the parameters describing the individual motor proteins using analytical theory and direct numerical simulations. The effective Langevin description for the filament motion gives mean-squared displacement, asymptotic diffusion constant, and mobility leading to an effective temperature. Finally, we show how competition between motor protein extensions generates a self-load, describable in terms of the effective temperature, affecting the filament motion.

cond-mat.soft↗

arXiv2023

When does an active bath behave as an equilibrium one?

Active baths are characterized by a non-Gaussian velocity distribution and a quadratic dependence with active velocity $v_0$ of the kinetic temperature and diffusion coefficient. While these results hold in over-damped active systems, inertial effects lead to normal velocity distributions, with kinetic temperature and diffusion coefficient increasing as $\sim v_0^α$ with $1<α<2$. Remarkably, the late-time diffusivity and mobility decrease with mass. Moreover, we show that the equilibrium Einstein relation is asymptotically recovered with inertia. In summary, the inertial mass restores an equilibrium-like behavior.

cond-mat.stat-mech↗

arXiv2023

Extension and dynamical phases in random walkers depositing and following chemical trails

Active walker models have proved to be extremely effective in understanding the evolution of a large class of systems in biology like ant trail formation and pedestrian trails. We propose a simple model of a random walker which modifies its local environment that in turn influences the motion of the walker at a {\em later} time. We perform direct numerical simulations of the walker in a discrete lattice with the walker actively depositing a chemical which attracts the walker trajectory and also evaporates in time. We propose a method to look at the structural transitions of the trajectory using radius of gyration for finite time walks. The extension over a definite time-window shows a non-monotonic change with the deposition rate characteristic of a coil-globule transition. At certain regions of the parameter space of the chemical deposition and evaporation rates, the extensions of the walker shows a re-entrant behavior. The dynamics, characterised by the mean-squared displacement, shows deviation from diffusive scaling at intermediate time scales, returning to diffusive behavior asymptotically. A mean field theory captures the variation of the asymptotic diffusivity.

physics.bio-ph↗

arXiv2021

Self-propulsion with speed and orientation fluctuation: exact computation of moments and dynamical bistabilities in displacement

We consider the influence of active speed fluctuations on the dynamics of a $d$-dimensional active Brownian particle performing a persistent stochastic motion. We use the Laplace transform of the Fokker-Planck equation to obtain exact expressions for time-dependent dynamical moments. Our results agree with direct numerical simulations and show several dynamical crossovers determined by the activity, persistence, and speed fluctuation.The persistence in the motion leads to anisotropy, with the parallel component of displacement fluctuation showing sub-diffusive behavior and non-monotonic variation. The kurtosis remains positive at short times determined by the speed fluctuation, crossing over to a negative minimum at intermediate times governed by the persistence before vanishing asymptotically. The probability distribution of particle displacement obtained from numerical simulations in two-dimension shows two crossovers between contracted and expanded trajectories via two bimodal distributions at intervening times. While the speed fluctuation dominates the first crossover, the second crossover is controlled by persistence like in the worm-like chain model of semiflexible polymers.

cond-mat.stat-mech↗

arXiv2021

Pattern formation, localized and running pulsation on active spherical membranes

Active force generation by actin-myosin cortex coupled to the cell membrane allows the cell to deform, respond to the environment, and mediate cell motility and division. Several membrane-bound activator proteins move along it and couple to the membrane curvature. Besides, they can act as nucleating sites for the growth of filamentous actin. Actin polymerization can generate a local outward push on the membrane. Inward pull from the contractile actomyosin cortex can propagate along the membrane via actin filaments. We use coupled evolution of fields to perform linear stability analysis and numerical calculations. As activity overcomes the stabilizing factors such as surface tension and bending rigidity, the spherical membrane shows instability towards pattern formation, localized pulsation, and running pulsation between poles. We present our results in terms of phase diagrams and evolutions of the coupled fields. They have relevance for living cells and can be verified in experiments on artificial cell-like constructs.

cond-mat.soft↗

arXiv2021

Active Brownian motion with speed fluctuations in arbitrary dimensions: exact calculation of moments and dynamical crossovers

We consider the motion of an active Brownian particle with speed fluctuations in d-dimensions in the presence of both translational and orientational diffusion. We use an Ornstein-Uhlenbeck process for active speed generation. Using a Laplace transform approach, we describe and use a Fokker-Planck equation-based method to evaluate the exact time dependence of all relevant dynamical moments. We present explicit calculations of such moments and compare our analytical predictions against numerical simulations to demonstrate and analyze several dynamical crossovers. The kurtosis of displacement shows positive or negative deviations from a Gaussian behavior at intermediate times depending on the dominance of speed or orientational fluctuations.

cond-mat.stat-mech↗

arXiv2020

Semiflexible polymer in a gliding assay: reentrant transition, role of turnover and activity

We consider a model of an extensible semiflexible filament moving in two dimensions on a motility assay of motor proteins represented explicitly as active harmonic linkers. Their heads bind stochastically to polymer segments within a capture radius, and extend along the filament in a directed fashion before detaching. Both the extension and detachment rates are load-dependent and generate an active drive on the filament. The filament undergoes a first order phase transition from open chain to spiral conformations and shows a reentrant behavior in both the active extension and the turnover, defined as the ratio of attachment-detachment rates. Associated with the phase transition, the size and shape of the polymer changes non-monotonically, and the relevant autocorrelation functions display double-exponential decay. The corresponding correlation times show a maximum signifying the dominance of spirals. The orientational dynamics captures the rotation of spirals, and its correlation time decays with activity as a power law.

physics.bio-ph↗

arXiv2020

Filament-motor protein system under loading: instability and limit cycle oscillations

We consider the dynamics of a rigid filament in a motor protein assay under external loading. The motor proteins are modeled as active harmonic linkers with tail ends immobilized on a substrate. Their heads attach to the filament stochastically to extend along it, resulting in a force on the filament, before detaching. The rate of extension and detachment are load dependent. Here we formulate and characterize the governing dynamics in the mean field approximation using linear stability analysis, and direct numerical simulations of the motor proteins and filament. Under constant loading, the system shows transition from a stable configuration to instability towards detachment of the filament from motor proteins. Under elastic loading, we find emergence of stable limit cycle oscillations via a supercritical Hopf bifurcation with change in activity and the number of motor proteins. Numerical simulations of the system for large number of motor proteins show good agreement with the mean field predictions.

physics.bio-ph↗

arXiv2020

Active Brownian particles: mapping to equilibrium polymers and exact computation of moments

It is well known that path probabilities of Brownian motion correspond to the equilibrium configurational probabilities of flexible Gaussian polymers, while those of active Brownian motion correspond to in-extensible semiflexible polymers. Here we investigate the properties of the equilibrium polymer that corresponds to the trajectories of particles acted on simultaneously by both Brownian as well as active noise. Through this mapping we can see interesting crossovers in mechanical properties of the polymer with changing contour length. The polymer end-to-end distribution exhibits Gaussian behaviour for short lengths, which changes to the form of semiflexible filaments at intermediate lengths, to finally go back to a Gaussian form for long contour lengths. By performing a Laplace transform of the governing Fokker-Planck equation of the active Brownian particle, we discuss a direct method to derive exact expressions for all the moments of the relevant dynamical variables, in arbitrary dimensions. These are verified via numerical simulations and used to describe interesting qualitative features such as, for example, dynamical crossovers. Finally we discuss the kurtosis of the ABP's position which we compute exactly and show that it can be used to differentiate between active Brownian particles and active Ornstein-Uhlenbeck process.

cond-mat.stat-mech↗

arXiv2020

Active Brownian particle in harmonic trap: exact computation of moments, and re-entrant transition

We consider an active Brownian particle in a $d$-dimensional harmonic trap, in the presence of translational diffusion. While the Fokker-Planck equation can not in general be solved to obtain a closed form solution of the joint distribution of positions and orientations, as we show, it can be utilized to evaluate the exact time dependence of all moments, using a Laplace transform approach. We present explicit calculation of several such moments at arbitrary times and their evolution to the steady state. In particular we compute the kurtosis of the displacement, a quantity which clearly shows the difference of the active steady state properties from the equilibrium Gaussian form. We find that it increases with activity to asymptotic saturation, but varies non-monotonically with the trap-stiffness, thereby capturing a recently observed active- to- passive re-entrant behavior.

cond-mat.stat-mech↗

arXiv2020

Two step melting of the Weeks-Chandler-Anderson system in two dimensions

We present a detailed numerical simulation study of a two dimensional system of particles interacting via the Weeks-Chandler-Anderson potential, the repulsive part of the Lennard-Jones potential. With reduction of density, the system shows a two-step melting: a continuous melting from solid to hexatic phase, followed by a a first order melting of hexatic to liquid. The solid-hexatic melting is consistent with the Kosterlitz-Thouless-Halperin-Nelson-Young (KTHNY) scenario and shows dislocation unbinding. The first order melting of hexatic to fluid phase, on the other hand, is dominated by formation of string of defects at the hexatic-fluid interfaces.

cond-mat.soft↗

arXiv2020

Impact of crowders on the morphology of bacterial chromosomes

Inspired by recent experiments on the effects of cytosolic crowders on the organization of bacterial chromosomes, we consider a "feather-boa" type model chromosome in the presence of non-additive crowders, encapsulated within a cylindrical cell. We observe spontaneous emergence of complementary helicity of the confined polymer and crowders. This feature is reproduced within a simplified effective model of the chromosome. This latter model further establishes the occurrence of longitudinal and transverse spatial segregation transitions between the chromosome and crowders upon increasing crowder size.

physics.bio-ph↗

arXiv2019

Structure-dynamics relationship in ratcheted colloids: Resonance melting, dislocations, and defect clusters

We consider a two dimensional colloidal dispersion of soft-core particles driven by a one dimensional stochastic flashing ratchet that induces a time averaged directed particle current through the system. It undergoes a non-equilibrium melting transition as the directed current approaches a maximum associated with a resonance of the ratcheting frequency with the relaxation frequency of the system. We use extensive molecular dynamics simulations to present a detailed phase diagram in the ratcheting rate-mean density plane. With the help of numerically calculated structure factor, solid and hexatic order parameters, and pair correlation functions, we show that the non-equilibrium melting is a continuous transition from a quasi-long ranged ordered solid to a hexatic phase. The transition is mediated by the unbinding of dislocations, and formation of compact and string-like defect clusters.

cond-mat.soft↗