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Hybrid modeling provides an effective solution to cope with multiple time scales dynamics in systems biology. Among the applications of this method, one of the most important is the cell cycle regulation. The machinery of the cell cycle,…

Computational Engineering, Finance, and Science · Computer Science 2013-09-05 Vincent Noël , Sergey Vakulenko , Ovidiu Radulescu

The ability of a cancer cell population to achieve heterogeneity in their phenotype distributions offers advantages in tumor invasiveness and drug resistance. Studying the mechanisms behind such observed heterogeneity in mammalian cells…

Cell Behavior · Quantitative Biology 2024-08-20 Simone Scalise , Giorgio Gosti , Giancarlo Ruocco , Giovanna Peruzzi , Mattia Miotto

Infectious diseases outbreaks are often characterized by a spatial component induced by hosts' distribution, mobility, and interactions. Spatial models that incorporate hosts' movements are being used to describe these processes, to…

Physics and Society · Physics 2012-07-20 Chiara Poletto , Michele Tizzoni , Vittoria Colizza

Piecewise smooth hybrid systems, involving continuous and discrete variables, are suitable models for describing the multiscale regulatory machinery of the biological cells. In hybrid models, the discrete variables can switch on and off…

Computational Engineering, Finance, and Science · Computer Science 2012-08-21 Vincent Noel , Dima Grigoriev , Sergei Vakulenko , Ovidiu Radulescu

The dynamics of growth of bacterial populations has been extensively studied for planktonic cells in well-agitated liquid culture, in which all cells have equal access to nutrients. In the real world, bacteria are more likely to live in…

Populations and Evolution · Quantitative Biology 2017-11-01 Xinxian Shao , Andrew Mugler , Justin Kim , Ha Jun Jeong , Bruce Levin , Ilya Nemenman

Especially in lattice structured populations, homogeneous mixing represents an inadequate assumption. Various improvements upon the ordinary pair approximation based on a number of assumptions concerning the higher-order correlations have…

Populations and Evolution · Quantitative Biology 2007-05-23 Thomas Petermann , Paolo De Los Rios

In robot swarms operating under highly restrictive sensing and communication constraints, individuals may need to use direct physical proximity to facilitate information exchange. However, in certain task-related scenarios, this requirement…

Robotics · Computer Science 2019-03-05 Siddharth Mayya , Gennaro Notomista , Dylan Shell , Seth Hutchinson , Magnus Egerstedt

Exchange of biochemical substances is essential way in establishing communication between bacterial cells. It is noticeable that all phases of the process are heavily influenced by perturbations of either internal or external parameters.…

Chaotic Dynamics · Physics 2010-08-18 Igor Balaz , Dragutin T. Mihailovic

We present a model of soft active particles that leads to a rich array of collective behavior found also in dense biological swarms of bacteria and other unicellular organisms. Our model uses only local interactions, such as Vicsek-type…

Soft Condensed Matter · Physics 2016-10-13 Ruben van Drongelen , Anshuman Pal , Carl P. Goodrich , Timon Idema

It is experimentally known that virus exhibits stochastic motion in cytoplasm of a living cell in the free form as well as the form being contained in the endosome and the exponent of anomalous diffusion of the virus fluctuates depending on…

Biological Physics · Physics 2015-06-22 Yuichi Itto

Several biological and social contagion phenomena, such as superspreading events or social reinforcement, are the results of multi-body interactions, for which hypergraphs offer a natural mathematical description. In this paper, we develop…

We consider heterogeneous wireless networks in the physical interference model and introduce a new formulation of the mixed-integer nonlinear programming problem that addresses base-station activation and many-to-many associations while…

Networking and Internet Architecture · Computer Science 2022-01-26 Raphael M. Guedes , José F. de Rezende , Valmir C. Barbosa

Many motile microorganisms react to environmental light cues with a variety of motility responses guiding cells towards better conditions for survival and growth. The use of spatial light modulators could help to elucidate the mechanisms of…

Population dynamics is constrained by the environment, which needs to obey certain conditions to support population growth. We consider a standard model for the evolution of a single species population density, that includes reproduction,…

Populations and Evolution · Quantitative Biology 2016-10-18 E. H. Colombo , C. Anteneodo

The collective motion of interacting self-driven particles describes many types of coordinated dynamics and self-organisation. Prominent examples are alignment or lane formation which can be observed alongside other ordered structures and…

Adaptation and Self-Organizing Systems · Physics 2022-02-24 Basma Khelfa , Raphael Korbmacher , Andreas Schadschneider , Antoine Tordeux

Mechanical stresses stemming from environmental factors are a key determinant of cellular behavior and physiology. Yet, the role of self-induced biomechanical stresses in growing bacterial colonies has remained largely unexplored. Here, we…

Soft Condensed Matter · Physics 2023-11-27 René Wittmann , G. H. Philipp Nguyen , Hartmut Löwen , Fabian J. Schwarzendahl , Anupam Sengupta

We study numerically how the structures of distinct networks influence the epidemic dynamics in contact process. We first find that the variability difference between homogeneous and heterogeneous networks is very narrow, although the…

Physics and Society · Physics 2012-04-04 Kai Gong , Ming Tang , Hui Yang , Mingsheng Shang

A dynamical systems scenario for developmental cell biology is proposed, based on numerical studies of a system with interacting units with internal dynamics and reproduction. Diversification, formation of discrete and recursive types, and…

chao-dyn · Physics 2009-10-31 Kunihiko Kaneko , Chikara Furusawa

We investigate experimentally the connection between short time dynamics and long time dynamical heterogeneities within a dense granular media under cyclic shear. We show that dynamical heterogeneities result from a two timescales process.…

Soft Condensed Matter · Physics 2009-03-24 R. Candelier , O. Dauchot , G. Biroli

Protein aggregation is of particular interest due to its connection with many diseases and disorders. Many factors can alter the dynamics and result of this process, one of them being the diffusivity of the monomers and aggregates in the…

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