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With recent advances in structural biology, including experimental techniques and deep learning-enabled high-precision structure predictions, molecular dynamics methods that scale up to large biomolecular systems are required. Current…

Biological Physics · Physics 2022-06-24 Tim Hempel , Simon Olsson , Frank Noé

Nanofluidics has firmly established itself as a new field in fluid mechanics, as novel properties have been shown to emerge in fluids at the nanometric scale. Thanks to recent developments in fabrication technology, artificial nanofluidic…

Fluid Dynamics · Physics 2020-12-01 Nikita Kavokine , Roland R. Netz , Lydéric Bocquet

Cell division is an essential biological process, and regulation of cell division is of relevance for many important fields of biology and medicine. Introducing exogenous substances, such as nanoparticles, into the nucleus, has been…

Biological Physics · Physics 2022-06-09 Bin Kang

To celebrate Hans Frauenfelder's achievements, we examine energy(-like) "landscapes" for complex living systems. Energy landscapes summarize all possible dynamics of some physical systems. Energy(-like) landscapes can explain some…

Quantitative Methods · Quantitative Biology 2021-10-18 Lars Koopmans , Hyun Youk

The ability of eukaryotic cells to squeeze through constrictions is limited by the stiffness of their large and rigid nucleus. However, migrating cells are often able to overcome this limitation and pass through constrictions much smaller…

Biological Physics · Physics 2023-12-20 Sirine Amiri , Yirui Zhang , Andonis Gerardos , Cécile Sykes , Pierre Ronceray

A distinguishing feature of a multicellular living system is that it operates at various scales, from the intracellular to organismal. Very little is known at present on how tissue level properties are related to cell and subcellular…

Biological Physics · Physics 2007-06-26 Elijah Flenner , Francoise Marga , Adrian Neagu , Ioan Kosztin , Gabor Forgacs

Discussed is relationship between nonlinearity and symmetry of dynamical models. The special stress is laid on essential, non-perturbative nonlinearity, when none linear background does exist. This is nonlinearity essentially different from…

Mathematical Physics · Physics 2010-03-17 Jan Jerzy Sławianowski , Vasyl Kovalchuk

Micropatterned substrates are often used to standardize cell experiments and to quantitatively study the relation between cell shape and function. Moreover, they are increasingly used in combination with traction force microscopy on soft…

Cell Behavior · Quantitative Biology 2015-06-19 Philipp J. Albert , Ulrich S. Schwarz

State of the art numerical models of the Geodynamo are still performed in a parameter regime extremely remote from the values relevant to the physics of the Earth's core. In order to establish a connection between dynamo modeling and the…

Geophysics · Physics 2015-06-18 Ludivine Oruba , Emmanuel Dormy

Any affine map on the (n+1)-dimensional Euclidean space gives rise to a natural map on the n-dimensional sphere whose dynamical aspects are not so well-studied in the literature. We explore the dynamical aspects of these maps by…

Dynamical Systems · Mathematics 2023-09-12 Manoj Choudhuri , Gianluca Faraco , Alok Kumar Yadav

This work probes the role of cell geometry in orienting self-organized fluid flows in the late stage Drosophila oocyte. Recent theoretical work has shown that a model, which relies only on hydrodynamic interactions of flexible, cortically…

The correspondence principle in physics between quantum mechanics and classical mechanics suggests deep relations between spectral and geometric entities of Riemannian manifolds. We survey---in a way intended to be accessible to a wide…

Dynamical Systems · Mathematics 2020-11-20 A. Pohl , D. Zagier

The distances over which biological molecules and their complexes can function range from a few nanometres, in the case of folded structures, to millimetres, for example during chromosome organization. Describing phenomena that cover such…

Soft Condensed Matter · Physics 2011-09-28 Changbong Hyeon , D. Thirumalai

Cell layers eliminate unwanted cells through the extrusion process, which underlines healthy versus flawed tissue behaviors. Although several biochemical pathways have been identified, the underlying mechanical basis including the forces…

Soft Condensed Matter · Physics 2023-04-20 Siavash Monfared , Guruswami Ravichandran , Jose E. Andrade , Amin Doostmohammadi

The fluid-mechanics community is currently divided in assessing the boundaries of applicability of the macroscopic approach to fluid mechanical problems. Can the dynamics of nano-droplets be described by the same macroscopic equations as…

Fluid Dynamics · Physics 2017-07-13 Alex V. Lukyanov , Tristan Pryer

Mesoscale phenomena -- involving a level of description between the finest atomistic scale and the macroscopic continuum -- can be studied by a variation on the usual atomistic-level molecular dynamics (MD) simulation technique. In…

Chemical Physics · Physics 2015-06-19 Keng-Hua Lin , Brad Lee Holian , Timothy C. Germann , Alejandro Strachan

Ion channels orchestrate the communication between cells and their environment. These are special proteins capable of changing their shape to allow ions to pass through membranes in response to stimuli like membrane tension. As the letters…

Biological Physics · Physics 2024-09-17 Uğur Çetiner

The onset and evolution of magnetic fields in laboratory and astrophysical plasmas is determined by several mechanisms, including instabilities, dynamo effects and ultra-high energy particle flows through gas, plasma and interstellar-media.…

Plasma Physics · Physics 2015-05-20 A. Flacco , J. Vieira , A. Lifschitz , F. Sylla , S. Kahaly , M. Veltcheva , L. O. Silva , V. Malka

Improved understanding of molecular systems has only emphasised the sophistication of networks within the cell. Simultaneously, the advance of nucleic acid nanotechnology, a platform within which reactions can be exquisitely controlled, has…

Molecular Networks · Quantitative Biology 2017-10-03 Thomas E. Ouldridge

Many of the most important processes in cells take place on and across membranes. With the rise of an impressive array of powerful quantitative methods for characterizing these membranes, it is an opportune time to reflect on the structure…

Biomolecules · Quantitative Biology 2017-03-08 Rob Phillips
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