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We analyze a microscopic RNA model, which includes two widely used models as limiting cases, namely it contains terms for bond as well as for stacking energies. We numerically investigate possible changes in the qualitative and quantitative…

Quantitative Methods · Quantitative Biology 2009-11-10 Bernd Burghardt , Alexander K. Hartmann

Epidemiological models describe the spread of an infectious disease within a population. They capture microscopic details on how the disease is passed on among individuals in various different ways, while making predictions about the state…

Populations and Evolution · Quantitative Biology 2024-02-27 Stefan Hohenegger , Francesco Sannino

We use experiments to study the dynamics of the healing of a blister, a localized bump in a thin elastic layer that is adhered to a soft substrate everywhere except at the bump. We create a blister by gently placing a glass cover slip on a…

Soft Condensed Matter · Physics 2014-02-04 Jonathan E. Longley , L. Mahadevan , Manoj K. Chaudhury

Density dependence is important in the ecology and evolution of microbial and cancer cells. Typically, we can only measure net growth rates, but the underlying density-dependent mechanisms that give rise to the observed dynamics can…

Populations and Evolution · Quantitative Biology 2025-06-04 Linh Huynh , Jacob G. Scott , Peter J. Thomas

This note presents a simulation method for investigating the relationship between porosity and particle size distribution in porous media characterization. The method simulates particle packing based on particle size distributions,…

Soft Condensed Matter · Physics 2024-09-25 Yuhe Wang

Phase separation is the thermodynamic process that explains how droplets form in multicomponent fluids. These droplets can provide controlled compartments to localize chemical reactions, and reactions can also affect the droplets' dynamics.…

Soft Condensed Matter · Physics 2022-09-02 David Zwicker

The individual contributions of pH and chloride concentration to the corrosion kinetics of bioabsorbable magnesium (Mg) alloys remain unresolved despite their significant roles as driving factors in Mg corrosion. This study demonstrates and…

Medical Physics · Physics 2025-03-21 S. Kovacevic , W. Ali , T. K. Mandal , E. Martínez-Pañeda , J. Llorca

Pimple is one of the most common skin diseases for humans. The mechanical modeling of pimple growth is very limited. A finite element model is developed to quantify the deformation field with the expansion of follicle, and then the…

Medical Physics · Physics 2017-04-07 Xiangbiao Liao , Xiaobin Deng , LiangLiang Zhu , Feng Hao , Hang Xiao , Xiaoyang Shi , Xi Chen

A probabilistic method for solving time-dependent load-transfer models of fracture is developed. It is applicable to any rule of load redistribution, i.e, local, hierarchical, etc. In the new method, the fluctuations are generated during…

Statistical Mechanics · Physics 2019-08-17 J. B. Gomez , Y. Moreno , A. F. Pacheco

We systematically study and compare damage spreading for random Boolean and threshold networks under small external perturbations (damage), a problem which is relevant to many biological networks. We identify a new characteristic…

Disordered Systems and Neural Networks · Physics 2008-04-30 Thimo Rohlf , Natali Gulbahce , Christof Teuscher

We review the evolution of some statistical and thermodynamical quantities measured in difference sizes of high-energy collisions at different energies. We differentiate between intensive and extensive quantities and discuss the importance…

High Energy Physics - Phenomenology · Physics 2013-10-03 A. Tawfik

Epidemiological processes are studied within a recently proposed hierarchical network model using the susceptible-infected-refractory dynamics of an epidemic. Within the network model, a population may be characterized by $H$ independent…

Disordered Systems and Neural Networks · Physics 2008-06-24 Dafang Zheng , P. M. Hui , Steffen Trimper , Bo Zheng

In the last decades, the interest to understand the connection between brain and body has grown notably. For example, in psychoneuroimmunology many studies associate stress, arising from many different sources and situations, to changes in…

Quantitative Methods · Quantitative Biology 2022-07-27 Maria Elena Gonzalez Herrero , Christian Kuehn

In medicolegal situations, the consequences of a stabbing incident are described in terms that are qualitative without being quantitative. Here, the mechanical variables involved in knife-tissue penetration events are used to determine the…

Classical Physics · Physics 2008-11-25 Michael D. Gilchrist , Stephen Keenan , Michael Curtis , Mary Cassidy , Greg Byrne , Michel Destrade

The electrostatic interaction of metal nanoparticles with viruses is attracting great interest due to their antiviral activity and their role in enhancing the detection of viruses at ultra-low concentrations. We model the MS2 virus devoid…

Soft Condensed Matter · Physics 2019-06-26 Anh D. Phan , Trinh X. Hoang

Local changes in pH are known to significantly alter the state and activity of proteins and in particular enzymes. pH variations induced by pulses propagating along soft interfaces (e.g. the lipid bilayer) would therefore constitute an…

Biological Physics · Physics 2015-03-18 Bernhard Fichtl , Shamit Shrivastava , Matthias F. Schneider

Understanding how growth induces form is a longstanding biological question. Many studies concentrated on the shapes of plant cells, fungi or bacteria. Some others have shown the importance of the mechanical properties of bacterial walls…

Biological Physics · Physics 2007-05-23 Arezki Boudaoud

The notion of causal effect is fundamental across many scientific disciplines. Traditionally, quantitative researchers have studied causal effects at the level of variables; for example, how a certain drug dose (W) causally affects a…

Methodology · Statistics 2026-04-07 Junhyung Park , Yuqing Zhou

Epithelization, the process whereby an epithelium covers a cell-free surface, is not only central to wound healing but also pivotal in embryonic morphogenesis, regeneration, and cancer. In the context of wound healing, the epithelization…

Cell Behavior · Quantitative Biology 2014-02-21 Olivier Cochet-Escartin , Jonas Ranft , Pascal Silberzan , Philippe Marcq

Despite there being an infinite variety of types of flow, most rheological studies focus on a single type such as simple shear. Using discrete element simulations, we explore bulk granular systems in a wide range of flow types at large…

Soft Condensed Matter · Physics 2022-01-04 Joel T. Clemmer , Ishan Srivastava , Gary S. Grest , Jeremy B. Lechman
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