生物物理
We demonstrate a method of concentrating and patterning of biological cells on a chip, exploiting the confluence of electric and thermal fields, without necessitating the use of any external heating or illuminating source. The technique…
An artificial neural network (ANN) based on fundamental principles of physics can simulate the operation of neurobiological reality of membrane potential as well as the properly defined order parameter. This ANN operates in conditions of…
The unique nonlinear mechanics of the fibrous extracellular matrix (ECM) facilitates long-range cell-cell mechanical communications that would be impossible on linear elastic substrates. Past research has described the contribution of two…
Motivated by recent experiments probing shape, size and dynamics of bacterial chromosomes in growing cells, we consider a polymer model consisting of a circular backbone to which side-loops are attached, confined to a cylindrical cell. Such…
The interaction of heavy charged particles with DNA is of interest for several areas, from hadrontherapy to aero-space industry. In this paper, a TD-DFT study on the interaction of a 4 keV proton with an isolated DNA base pair was carried…
The celebrated Michaelis-Menten (MM) expression provides a fundamental relation between the rate of enzyme catalysis and substrate concentration. The validity of this classical expression is, however, restricted to macroscopic amounts of…
In population dynamics, mathematical models often contain too many parameters to be easily testable. A way to reliably estimate parameters for a broad range of systems would help us obtain clearer predictions from theory. In this paper, we…
Cortical folding pattern is a main characteristic of the geometry of the human brain which is formed by gyri (ridges) and sulci (grooves). Several biological hypotheses have suggested different mechanisms that attempt to explain the…
On 2018-01-17 two electron crystallography structures (with PDB entries 6AXZ, 6BTK) on a prion protofibril of bank vole PrP(168-176) (a segment in the PrP $\beta$2-$\alpha$2 loop) were released into the PDB Bank. The paper published by [Nat…
Large and complex molecules are building blocks for life. We compute probabilities for their formation from an average non-equilibrium model. As the distance from thermodynamic equilibrium is increased in this model, so too are the chances…
Bacterial microcompartments are large, roughly icosahedral shells that assemble around enzymes and reactants involved in certain metabolic pathways in bacteria. Motivated by microcompartment assembly, we use coarse-grained computational and…
Across mammalian species, solute exchange takes place in complex microvascular networks. In the human placenta, the primary exchange units are terminal villi that contain disordered networks of fetal capillaries and are surrounded…
Collective cell migration in 3D extracellular matrix (ECM) is crucial to many physiological and pathological processes. Migrating cells can generate active pulling forces via actin filament contraction, which are transmitted to the ECM…
Cyborg in the brain-machine interface field has attracted more attention in recent years. To control a creature via a machine called cyborg method, three stages are considerable: stimulation of neurons, neural response, and the behavioral…
The study of protein functions attributed to the conformation and fluctuation that are ruled by both the amino acid sequence and thermodynamics, requires thermodynamic quantities given by calorimetry using thermometric techniques. The…
In this review, we focus on the kinesin-3 family molecular motor protein UNC-104 and its regulatory protein ARL-8. UNC-104, originally identified in Caenorhabditis elegans (C. elegans), has a primary role transporting synaptic vesicle…
The vibrational theory of olfaction was posited to explain subtle effects in the sense of smell inexplicable by models in which molecular structure alone determines an odorant's smell. Amazingly, behavioral and neurophysiological evidence…
Many bacteria rely on active cell appendages, such as type IV pili, to move over substrates and interact with neighboring cells. Here, we study the motion of individual cells and bacterial colonies, mediated by the collective interactions…
Cellular checkerboard patterns are observed at many developmental stages of embryos. We study an analytically tractable model for lateral inhibition and show that a coupling coefficient with a negative value is sufficient to obtain noisy or…
Nerve stimulation via micro-electrode implants is one of the neurostimulation approaches which is used frequently in the medical treatment of some brain disorders, neural prosthetics, brain-machine interfaces and also in the cyborg. In this…