Biological Physics
Complex I (NADH:ubiquinone oxidoreductase) is a redox-driven proton pump that powers synthesis of adenosine triphosphate (ATP) and active transport in most organisms. This gigantic enzyme reduces quinone (Q) to quinol (QH2) in its…
Microorganismal motility is often characterised by complex responses to environmental physico-chemical stimuli. Although the biological basis of these responses is often not well understood, their exploitation already promises novel avenues…
The modeling of atomistic biomolecular simulations using kinetic models such as Markov state models (MSMs) has had many notable algorithmic advances in recent years. The variational principle has opened the door for a nearly fully automated…
Many aspects of the study of protein folding and dynamics have been affected by the recent advances in machine learning. Methods for the prediction of protein structures from their sequences are now heavily based on machine learning tools.…
The envelopes covering bacterial cytoplasm possess remarkable elastic properties. They are rigid enough to resist large pressures while being flexible enough to adapt to growth under environmental constraints. Similarly, the virus shells…
Peristalsis enables transport of the food bolus in the gut. Here, I show by dynamic ex-vivo intra-cellular calcium imaging on living embryonic gut transverse sections that the most primitive form of peristalsis that occurs in the embryo is…
Many different processes take place to facilitate lubrication of the joints functioning in human locomotion system. The main purpose of this is to avoid destroying the articular cartilage. Viscoelastic properties of the joints system are…
In the modeling of complex biological systems, the use of power-law models (such as S-systems and GMA systems) often provides a remarkable accuracy over several orders of magnitude in concentrations, an unusually broad range not fully…
Recent experimental and theoretical studies show that energy efficiency, which measures the amount of information processed by a neuron with per unit of energy consumption, plays an important role in the evolution of neural systems. Here,…
Mathematical models describing the signals propagating in nerve fibres are described. The emphasis is on the mathematical structures of governing equations while the extremely rich physiological aspects are here not analysed. Based on…
An individual's reaction time data to visual stimuli have usually been represented in Experimental Psychology by means of an ex-Gaussian function (EGF). In most previous works, researchers have mainly aimed at finding a meaning for the…
Supported Lipid Bilayers (SLBs) are model membranes formed at solid substrate surfaces. This architecture renders the membrane experimentally accessible to surface sensitive techniques used to study their properties, including Atomic Force…
Collagen forms the structural scaffold of connective tissues in all mammals. Tissues are remarkably resistant against mechanical deformations because collagen molecules hierarchically self-assemble in fibrous networks that stiffen with…
While ubiquitous, energy redistribution remains a poorly understood facet of the nonequilibrium thermodynamics of biomolecules. At the molecular level, finite-size effects, pronounced nonlinearities, and ballistic processes produce behavior…
In this perspective, we examine three key aspects of an end-to-end pipeline for realistic cellular simulations: reconstruction and segmentation of cellular structures; generation of cellular structures; and mesh generation, simulation, and…
A living cell's interior is one of the most complex and intrinsically dynamic systems, providing an elaborate interplay between cytosolic crowding and ATP-driven motion, which controls cellular functionality. Here, we investigated two…
We investigate cell trajectories during zebrafish early embryogenesis based on 3D+time photonic microscopy imaging data. To remove the collective flow motion and focus on fluctuations, we analyze the deviations of pairs of neighboring…
In the growth of bacterial colonies, a great variety of complex patterns are observed in experiments, depending on external conditions and the bacterial species. Typically, existing models employ systems of reaction-diffusion equations or…
The sense of smell is an important part of living organisms. It assists with the interaction of the living organism with its environment. The mechanism by which smell is detected and identified is not fully known. Earlier, shape theory was…
Living organisms exhibit consistent homochirality. It is argued that the specific, binary choice made is not an accident but is a consequence of parity violation in the weak interaction expressed by cosmic irradiation. The secondary muons…