Biological Physics
The theoretical study of deformability of special sequence of DNA double helix TATA-box is presentated. The paper elaborates on the mechanisms of abnormal deformation of DNA TATA-box double helix that cannot be explained using the standard…
Single-molecule localization microscopy allows practitioners to locate and track labeled molecules in biological systems. When extracting diffusion coefficients from the resulting trajectories, it is common practice to perform a linear fit…
Modulating extracellular matrix (ECM) elasticity with fibrillar collagen offers great potential for regenerative medicine, drug discovery, and disease modeling by replicating invivo mechanical signals. This enhances understanding of…
Modeling of the red blood cell (RBC) shape is an integral part of the experimental and computer simulation investigations of light scattering by these cells for fundamental studies as well as diagnostic applications in techniques like…
With the European Space Agency (ESA) and NASA working to return humans to the moon and onwards to Mars, it has never been more important to study the impact of altered gravity conditions on biological organisms. These include astronauts but…
We propose the Self Returning Excluded Volume (SR-EV) model for the structure of chromatin based on stochastic rules and physical interactions. The SR-EV rules of return generate conformationally-defined domains observed by single cell…
Molecular dynamics simulations have become essential in many areas of atomistic modelling from drug discovery to materials science. They provide critical atomic-level insights into key dynamical events experiments cannot easily capture.…
The complexity of biological systems and processes, spanning molecular to macroscopic scales, necessitates the use of multiscale simulations to get a comprehensive understanding. Quantum mechanics/molecular mechanics (QM/MM) molecular…
Protein aggregates exhibit diverse morphology, exemplified by amyloid fibrils, gel-like structures, and liquid-like condensates. Differences in the morphologies in identical proteins play important functional roles in several diseases.…
In recent years, action-detected ultrafast spectroscopies have gained popularity. These approaches offer some advantages over their coherently-detected counterparts, enabling spatially-resolved and operando measurements with high…
Biofilament-motor protein complexes are ubiquitous in biology and drive the transport of cargo vital for many fundamental cellular processes. As they move, motor proteins exert compressive forces on the filaments to which they are attached,…
Eukaryotes swim with coordinated flagellar (ciliary) beating and steer by fine-tuning the coordination. The model organism for studying flagellate motility, C. reinhardtii (CR), employs synchronous, breast-stroke-like flagellar beating to…
In this paper we present a mathematical study of particle diffusion inside and outside a spherical biological cell that has been exposed on one side to a propagating planar diffusive front. The media inside and outside the spherical cell…
The non-equilibrium fluctuations observed in a number of COVID-19 cases and deaths are analyzed from a statistical-dynamical point view. By investigating the data observed around the world which were collected from January 15, 2020 to April…
In this paper we consider the diffusion of nanoparticles taken up by a semi-permeable spherical cell placed in the path of a diffusive particle field generated by an external planar source. The cell interior and exterior are characterized…
Markov state models (MSMs) are valuable for studying dynamics of protein conformational changes via statistical analysis of molecular dynamics (MD) simulations. In MSMs, the complex configuration space is coarse-grained into conformational…
The study proposes a new efficient wireless biosensor based on magnetoelastic waves for the detection of antibodies in human plasma, aiming at the serological diagnosis of COVID-19. The biosensor was functionalized with the N antigen -…
The rapid and complex patterning of biosilica in diatom frustules is of great interest in nanotechnology, although it remains incompletely understood. Specific organic molecules, including long-chain polyamines, silaffins, and silacidins…
In the field of environmental toxicology, rapid and precise assessment of the inflammatory response to pollutants in biological models is critical. This study leverages the power of deep learning to enable automated assessments of…
Propagating spiral waves have been discovered in various chemical, biological and physical systems. Spiral waves in multicellular organisms are often associated with essential living functions. Although certain eukaryotic microorganisms…