All posts under category "Physics / Physics.bio-Ph"
Based on the intensity and rates of various kinds of intense ionizing radiation events such as supernovae and gamma-ray bursts, it is likely that the Earth has been subjected to one or extinction level events during the Phanerozoic. These induce changes in atmospheric chemistry so that the level of
Digital information can be encoded in the building-block sequence of macro-molecules, such as RNA and single-stranded DNA. Methods of 'writing' and 'reading' macromolecular strands are currently available, but they are slow and expensive. In an ideal molecular data storage system, routine operations
Since laws of physics exist in nature, their possible relationship to terrestial growth is introduced. By considering the human body as a dynamic system of variable mass (and volume), growing under a gravity field, it is shown how natural laws may influence the vertical growth of humans. This approa
A new type of diode that is made entirely of electrically excitable muscle cells and nonexcitable fibroblast cells is designed, fabricated, and characterized. These two cell types in a rectangular pattern allow the signal initiated on the excitable side to pass to the nonexcitable side, and not in t
It is known that many potent, often aromatic drugs are water insoluble, which has hampered their use for disease treatment. In this work, we functionalized nano-graphene oxide (NGO), a novel graphitic material, with branched polyethylene glycol (PEG) to obtain a biocompatible NGO-PEG conjugate stabl
Two-player games have had a long and fruitful history of applications stretching across the social, biological, and physical sciences. Most applications of two-player games assume synchronous decisions or moves even when the games are iterated. But different strategies may emerge as preferred when t
A single protein molecule is regarded as a contact network of amino-acid residues. Some studies have indicated that this network is a small world network (SWN), while other results have implied that this is a fractal network (FN). However, SWN and FN are essentially different in the dependence of th
Detailed characterization of damage and rupture mechanics of arteries is one the current challenges in vascular biomechanics, which requires developing suitable experimental approaches. This paper introduces an approach using in situ tensile tests in an X-ray micro-tomography setup to observe mechan
We modify the freezing method introduced by Beyn & Thuemmler, 2004, for analyzing rigidly rotating spiral waves in excitable media. The proposed method is designed to stably determine the rotation frequency and the core radius of rotating spirals, as well as the approximate shape of spiral waves in
We report experimental results on unidirectional traffic-like collective movement of ants on trails. Our work is primarily motivated by fundamental questions on the collective spatio-temporal organization in systems of interacting motile constituents driven far from equilibrium. Making use of the an
In this work we examine the electrostatic screening potential due to a point charge located off-centre in a spherical dielectric cavity. This potential is expanded for the case in which the dielectric constant $epsilon$ is large, several methods of finding the terms in the expansion are investigated
Nuclear pore complexes (NPCs) are very selective filters that monitor the transport between the cytoplasm and the nucleoplasm. Two models have been suggested for the plug of the NPC. They are (i) it is a reversible hydrogel or (ii) it is a polymer brush. We propose a mesoscopic model for the transpo
Blood system functions are very diverse and important for most processes in human organism. One of its primary functions is matter transport among different parts of the organism including tissue supplying with oxygen, carbon dioxide excretion, drug propagation etc. Forecasting of these processes un
We study the passage times of a translocating polymer of length $N$ in three dimensions, while it is pulled through a narrow pore with a constant force $F$ applied to one end of the polymer. At small to moderate forces, satisfying the condition $FN^{nu}/k_BTlesssim1$, where $nuapprox0.588$ is the Fl
The present paper is devoted to foundations of p-adic modelling in genomics. Considering nucleotides, codons, DNA and RNA sequences, amino acids, and proteins as information systems, we have formulated the corresponding p-adic formalisms for their investigations. Each of these systems has its charac
Aggregates of twisted protein fibers, such as sickle hemoglobin and actin, are important examples of biopolymers in which elastic interactions play a crucial role in determining the (metastable) bundle radii. Here, we present a corrected version of analysis on the stability of sickle hemoglobin fibe
We study a neural network model in which both neurons and synaptic interactions evolve in time simultaneously. The time evolution of synaptic interactions is described by a Langevin equation including a Hebbian learning term, and a bias term which is the interactions of the Hopfield model. We assume
We present a novel statistical mechanics formalism for the theoretical description of the process of protein folding$leftrightarrow$unfolding transition in water environment. The formalism is based on the construction of the partition function of a protein obeying two-stage-like folding kinetics. Us
We present a quantitative model for the biological evolution of species body masses within large groups of related species, e.g., terrestrial mammals, in which body mass M evolves according to branching (speciation), multiplicative diffusion, and an extinction probability that increases logarithmica
During fast locomotion - gallop, half bound - of quadruped mammals, the ground contact of the limbs in each pair do not alternate symmetrically. Animals using such asymmetrical gait thus choose whether the left or the right limb will contact the ground first, and this gives rise to limb preference.
Energy transfer (relaxation) phenomena are ubiquitous in nature. At a macroscopic level, the phenomenological theory of heat (Fourier law) successfully describes heat transfer and energy flow. However, its microscopic origin is still under debate. This is because the phenomena can contain many-body,
Synthesis of protein molecules in a cell are carried out by ribosomes. A ribosome can be regarded as a molecular motor which utilizes the input chemical energy to move on a messenger RNA (mRNA) track that also serves as a template for the polymerization of the corresponding protein. The forward move
We introduce the nested canalyzing depth of a function, which measures the extent to which it retains a nested canalyzing structure. We characterize the structure of functions with a given depth and compute the expected activities and sensitivities of the variables. This analysis quantifies how cana
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