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Originally motivated by the morphogenesis of bacterial microcolonies, the aim of this article is to explore models through different scales for a spatial population of interacting, growing and dividing particles. We start from a microscopic…

Analysis of PDEs · Mathematics 2025-01-07 Marie Doumic , Sophie Hecht , Marc Hoffmann , Diane Peurichard

Bacteria possess diverse mechanisms to regulate their motility in response to environmental and physiological signals, enabling them to navigate complex habitats and adapt their behavior. Among these mechanisms, interspecies recognition…

Populations and Evolution · Quantitative Biology 2025-12-01 Mattia Mattei , David Soriano Paños , Mahantesh Halappanavar , Alex Arenas

In a cell or microorganism the processes that generate mass, energy, information transfer, and cell fate specification are seamlessly integrated through a complex network of various cellular constituents and reactions. However, despite the…

Statistical Mechanics · Physics 2009-10-31 H. Jeong , B. Tombor , R. Albert , Z. N. Oltvai , A. -L. Barabasi

Biological and social systems are structured at multiple scales, and the incentives of individuals who interact in a group may diverge from the collective incentive of the group as a whole. Mechanisms to resolve this tension are responsible…

Populations and Evolution · Quantitative Biology 2023-05-31 Daniel B. Cooney , Simon A. Levin , Yoichiro Mori , Joshua B. Plotkin

Metabolic heterogeneity is widely recognised as the next challenge in our understanding of non-genetic variation. A growing body of evidence suggests that metabolic heterogeneity may result from the inherent stochasticity of intracellular…

Molecular Networks · Quantitative Biology 2020-10-08 Mona K Tonn , Philipp Thomas , Mauricio Barahona , Diego A Oyarzún

Advances in synthetic biology allow us to engineer bacterial collectives with pre-specified characteristics. However, the behavior of these collectives is difficult to understand, as cellular growth and division as well as extra-cellular…

Cell Behavior · Quantitative Biology 2017-09-13 James J. Winkle , Oleg Igoshin , Matthew R. Bennett , Krešimir Josić , William Ott

We have recorded the swarming-like collective migration of a large number of keratocytes (tissue cells obtained from the scales of goldfish) using long-term videomicroscopy. By increasing the overall density of the migrating cells, we have…

Cell Behavior · Quantitative Biology 2009-11-13 Balint Szabo , Gergely J. Szollosi , Balazs Gonci , Zsofi Juranyi , David Selmeczi , Tamas Vicsek

The importance of collective cellular migration during embryogenesis and tissue repair asks for a sound understanding of underlying principles and mechanisms. Here, we address recent in vitro experiments on cell monolayers which show that…

Quantitative Methods · Quantitative Biology 2016-03-14 Pierre Recho , Jonas Ranft , Philippe Marcq

To maintain homeostasis, living cells process information with networks of interacting molecules. Traditional models for cellular information processing have focused on networks of chemical reactions between molecules. Here, we describe how…

Biological Physics · Physics 2025-08-01 Arvind Murugan , David Zwicker , Charlotta Lorenz , Eric R. Dufresne

The migration of cells is relevant for processes such as morphogenesis, wound healing, and invasion of cancer cells. In order to move, single cells deform cyclically. However, it is not understood how these shape oscillations influence…

Biological Physics · Physics 2019-09-04 Matteo Campo , Simon K. Schnyder , John J. Molina , Thomas Speck , Ryoichi Yamamoto

Understanding design principles of complex cellular organization is one of the major challenges in biology. Recent analysis of the large-scale cellular organization has revealed the scale-free nature and robustness of metabolic and protein…

Molecular Networks · Quantitative Biology 2007-05-23 Hiroki R. Ueda , John B. Hogenesch

Cell migration is closely linked to cell shape, yet cell size is often assumed to remain constant. This assumption is challenged by recent experiments showing that cells undergo volume loss during spreading and swelling upon activation,…

Biological Physics · Physics 2025-05-28 Jonathan E. Ron , Ram M. Adar

During overflow metabolism, cells excrete glycolytic byproducts when growing under aerobic conditions in a seemingly wasteful fashion. While potentially advantageous for microbes with finite oxidative capacity, its role in higher organisms…

We present and analyse a model for cell signalling processes in biological tissues. The model includes diffusion and nonlinear reactions on the cell surfaces, and both inter- and intracellular signalling. Using techniques from the theory of…

Analysis of PDEs · Mathematics 2020-03-12 Mariya Ptashnyk , Chandrasekhar Venkataraman

A cell's behavior is a consequence of the complex interactions between its numerous constituents, such as DNA, RNA, proteins and small molecules. Cells use signaling pathways and regulatory mechanisms to coordinate multiple processes,…

Molecular Networks · Quantitative Biology 2007-09-12 Reka Albert

The spatial structure of the cell is highly organized at all levels: from small complexes and assemblies, to local nano- and micro-clusters, to global, micrometer scales across and between cells. We suggest that this multiscale spatial cell…

Biomolecules · Quantitative Biology 2013-08-06 Ruth Nussinov

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

T cells undergo large shape changes (morphodynamics) when migrating. While progress has been made elucidating the molecular basis of cell migration, statistical characterization of morphodynamics and migration has been limited, particularly…

Cell Behavior · Quantitative Biology 2024-08-09 Yeeren I. Low

Deciphering the control principles of metabolism and its interaction with other cellular functions is central to biomedicine and biotechnology. Yet, understanding the efficient control of metabolic fluxes remains elusive for large-scale…

Molecular Networks · Quantitative Biology 2015-09-04 Georg Basler , Zoran Nikoloski , Abdelhalim Larhlimi , Albert-László Barabási , Yang-Yu Liu

The development of complex multicellular organisms from a single parent cell is a highly orchestrated process that cells conduct collectively without central guidance, creating intricate dynamic patterns essential for development and…

Soft Condensed Matter · Physics 2025-05-29 Siavash Monfared , Aleksandra Ardaševa , Amin Doostmohammadi
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