Related papers: A Keller-Segel model for C elegans L1 aggregation
A generic lattice model for systems containing particles interacting with short-range attraction long-range repulsion (SALR) potential that can be solved exactly in one dimension is introduced. We assume attraction J_1 between the first…
The nematode Caenorhabditis elegans responds to an impressive range of chemical, mechanical and thermal stimuli and is extensively used to investigate the molecular mechanisms that mediate chemosensation, mechanotransduction and…
$L_1$ regularized logistic regression has now become a workhorse of data mining and bioinformatics: it is widely used for many classification problems, particularly ones with many features. However, $L_1$ regularization typically selects…
Many small organisms such as bacteria can attract each other by depositing chemical attractants. At the same time, they exert repulsive force on each other when crowded, which can be modeled by effective pressure as an increasing function…
Despite the relative simplicity of C. elegans, its locomotion machinery is not yet well understood. We focus on the generation of dorsoventral body bends. While central pattern generators are commonly involved in animal locomotion, their…
This paper continues our survey about the mean-field derivation of the two-dimensional signal-dependent Keller-Segel system studied in [1]. Therefore, we consider the same system of moderately interacting particles as before. The difference…
A non-negligible part of the biological reactions in the activated sludge process for treatment of wastewater takes place in secondary settling tanks that follow biological reactors. It is therefore of interest to develop models of…
The experimental use of micropatterned quasi-1D substrates has emerged as an useful experimental tool to study the nature of cell-cell interactions and gain insight on collective behaviour of cell colonies. Inspired by these experiments, we…
Soft condensed matter structures often challenge us with complex many-body phenomena governed by collective modes spanning wide spatial and temporal domains. In order to successfully tackle such problems mesoscopic coarse-grained (CG)…
The nervous system of the nematode soil worm Caenorhabditis elegans exhibits remarkable complexity despite the worm's small size. A general challenge is to better understand the relationship between neural organization and neural activity…
We present molecular dynamics simulations of aggregation kinetics in a colloidal suspension modeled as a highly asymmetric binary mixture. Starting from a configuration with largely uncorrelated colloidal particles the system relaxes by…
We experimentally studied the locomotion of the nematode C. elegans in both fluidic and granular media. In this fluid dynamics video, we show the motility gaits of the nematode in these two environments. The motility of the nematode C.…
Recent whole-brain calcium imaging recordings of the nematode C. elegans have demonstrated that neural activity is dominated by dynamics on a low-dimensional manifold that can be clustered according to behavioral states. Despite progress in…
Collective behavior is all around us, from flocks of birds to schools of fish. These systems are immensely complex, which makes it pertinent to study their behavior through minimal models. We introduce such a minimal model for cohesive and…
The problem of ring formation in solutions of cylindrical micelles is reinvestigated theoretically, taking into account a finite bending rigidity of the self-assembled linear objects. Transitions between three regimes are found when the…
Chemotaxis is a fundamental mechanism of cells and organisms, which is responsible for attracting microbes to food, embryonic cells into developing tissues, or immune cells to infection sites. Mathematically chemotaxis is described by the…
We perform numerical simulations of a simple model of one-patch colloidal particles to investigate: (i) the behavior of the gas-liquid phase diagram on moving from a spherical attractive potential to a Janus potential and (ii) the…
To survive in ever-changing environments, living organisms need to continuously combine the ongoing external inputs they receive, representing present conditions, with their dynamical internal state, which includes influences of past…
In this article we study the stabilizing of a primitive pattern of behaviour for the two-species community with chemotaxis due to the short-wavelength external signal. We use a system of Patlak-Keller-Segel type as a model of the community.…
Cytoskeletal gels are engineered prototypes that mimic the contractile behavior of a cell in-vitro. They are composed of an active polymer matrix and a liquid solvent. Their contraction kinetics is governed by two dynamic phenomena:…