arXiv subjects

Dipanjan Ghosh

Publications and source records attributed to Dipanjan Ghosh.

7 recordsLinked to original sources

arXiv2023

Multiflagellarity leads to the size-independent swimming speed of peritrichous bacteria

To swim through a viscous fluid, a flagellated bacterium must overcome the fluid drag on its body by rotating a flagellum or a bundle of multiple flagella. Because the drag increases with the size of bacteria, it is expected theoretically that the swimming speed of a bacterium inversely correlates with its body length. Nevertheless, despite extensive research, the fundamental size-speed relation of flagellated bacteria remains unclear with different experiments reporting conflicting results. Here, by critically reviewing the existing evidence and synergizing our own experiments of large sample sizes, hydrodynamic modeling and simulations, we demonstrate that the average swimming speed of \textit{Escherichia coli}, a premier model of peritrichous bacteria, is independent of their body length. Our quantitative analysis shows that such a counterintuitive relation is the consequence of the collective flagellar dynamics dictated by the linear correlation between the body length and the number of flagella of bacteria. Notably, our study reveals how bacteria utilize the increasing number of flagella to regulate the flagellar motor load. The collective load sharing among multiple flagella results in a lower load on each flagellar motor and therefore faster flagellar rotation, which compensates for the higher fluid drag on the longer bodies of bacteria. Without this balancing mechanism, the swimming speed of monotrichous bacteria generically decreases with increasing body length, a feature limiting the size variation of the bacteria. Altogether, our study resolves a long-standing controversy over the size-speed relation of flagellated bacteria and provides new insights into the functional benefit of multiflagellarity in bacteria.

physics.flu-dyn↗

arXiv2023

Molecular chaos in dense active systems

The hypothesis of molecular chaos plays the central role in kinetic theory, which provides a closure leading to the Boltzmann equation for quantitative description of classic fluids. Yet how to properly extend it to active systems is still an open question in nonequilibrium physics. Combining experiment, simulation, and theory, we investigate the emergent collective behaviors of self-propelled particles that exhibit collision avoidance, a moving strategy commonly adopted in natural and engineering active systems. This dense active system shows unusual phase dynamics strongly regulated by many-body interactions, which cannot be explained by theories assuming molecular chaos. To rationalize the interplay between different emergent phases, a simple kinetic model is proposed with a revised molecular chaos hypothesis, which treats the many-body effect implicitly via categorizing different types of particle pair collisions. Our model predicts an optimal growth rate of flocking and illustrates a generic approach for understanding dense active systems.

cond-mat.soft↗

arXiv2023

CDA: Contrastive-adversarial Domain Adaptation

Recent advances in domain adaptation reveal that adversarial learning on deep neural networks can learn domain invariant features to reduce the shift between source and target domains. While such adversarial approaches achieve domain-level alignment, they ignore the class (label) shift. When class-conditional data distributions are significantly different between the source and target domain, it can generate ambiguous features near class boundaries that are more likely to be misclassified. In this work, we propose a two-stage model for domain adaptation called \textbf{C}ontrastive-adversarial \textbf{D}omain \textbf{A}daptation \textbf{(CDA)}. While the adversarial component facilitates domain-level alignment, two-stage contrastive learning exploits class information to achieve higher intra-class compactness across domains resulting in well-separated decision boundaries. Furthermore, the proposed contrastive framework is designed as a plug-and-play module that can be easily embedded with existing adversarial methods for domain adaptation. We conduct experiments on two widely used benchmark datasets for domain adaptation, namely, \textit{Office-31} and \textit{Digits-5}, and demonstrate that CDA achieves state-of-the-art results on both datasets.

cs.CV↗

arXiv2021

To cross or not to cross: collective swimming of Escherichia coli under two-dimensional confinement

Bacteria in bulk fluids swim collectively and display fascinating emergent dynamics. Although bacterial collective swimming in three-dimensional (3D) geometries has been well studied, its counterpart in confined two-dimensional (2D) geometries relevant to natural habitats of bacteria is still poorly understood. Here, through carefully designed experiments on Escherichia coli in Hele-Shaw chambers, we show that a small change in the degree of confinement leads to a drastic change in bacterial collective swimming. While long-range nematic order emerges for bacteria that can cross during encounters, a slight decrease of the chamber height prevents the crossing, leading to the formation of bacterial clusters with short-range polar order. By tracking the swimming kinetics of individual bacteria, we reveal the microscopic origins of the two collective phases. Our study provides important insights into bacterial collective swimming under confinement and demonstrates a convenient way to control the emergent symmetry of collective phases.

cond-mat.soft↗

arXiv2020

Wisdom of the Ensemble: Improving Consistency of Deep Learning Models

Deep learning classifiers are assisting humans in making decisions and hence the user's trust in these models is of paramount importance. Trust is often a function of constant behavior. From an AI model perspective it means given the same input the user would expect the same output, especially for correct outputs, or in other words consistently correct outputs. This paper studies a model behavior in the context of periodic retraining of deployed models where the outputs from successive generations of the models might not agree on the correct labels assigned to the same input. We formally define consistency and correct-consistency of a learning model. We prove that consistency and correct-consistency of an ensemble learner is not less than the average consistency and correct-consistency of individual learners and correct-consistency can be improved with a probability by combining learners with accuracy not less than the average accuracy of ensemble component learners. To validate the theory using three datasets and two state-of-the-art deep learning classifiers we also propose an efficient dynamic snapshot ensemble method and demonstrate its value.

cs.LG↗

arXiv2018

Fast Bayesian inference of the multivariate Ornstein-Uhlenbeck process

The multivariate Ornstein-Uhlenbeck process is used in many branches of science and engineering to describe the regression of a system to its stationary mean. Here we present an $O(N)$ Bayesian method to estimate the drift and diffusion matrices of the process from $N$ discrete observations of a sample path. We use exact likelihoods, expressed in terms of four sufficient statistic matrices, to derive explicit maximum a posteriori parameter estimates and their standard errors. We apply the method to the Brownian harmonic oscillator, a bivariate Ornstein-Uhlenbeck process, to jointly estimate its mass, damping, and stiffness and to provide Bayesian estimates of the correlation functions and power spectral densities. We present a Bayesian model comparison procedure, embodying Ockham's razor, to guide a data-driven choice between the Kramers and Smoluchowski limits of the oscillator. These provide novel methods of analyzing the inertial motion of colloidal particles in optical traps.

cond-mat.stat-mech↗

arXiv2017

Fast Bayesian inference of optical trap stiffness and particle diffusion

Bayesian inference provides a principled way of estimating the parameters of a stochastic process that is observed discretely in time. The overdamped Brownian motion of a particle confined in an optical trap is generally modelled by the Ornstein-Uhlenbeck process and can be observed directly in experiment. Here we present Bayesian methods for inferring the parameters of this process, the trap stiffness and the particle diffusion coefficient, that use exact likelihoods and sufficient statistics to arrive at simple expressions for the maximum a posteriori estimates. This obviates the need for Monte Carlo sampling and yields methods that are both fast and accurate. We apply these to experimental data and demonstrate their advantage over commonly used non-Bayesian fitting methods.

physics.data-an↗