Biological Physics
The phenomenon of phase synchronization of oscillatory systems arising out of feedback coupling is ubiquitous across physics and biology. In noisy, complex systems, one generally observes transient epochs of synchronization followed by…
Phase balanced states are a highly under-explored class of solutions of the Kuramoto model and other coupled oscillator models on networks. So far, coupled oscillator research focused on phase synchronized solutions. Yet, global constraints…
In $\textit{Escherichia coli}$ bacterium, the molecular compounds involved in protein synthesis, messenger RNAs (mRNAs) and ribosomes, show marked intracellular localization patterns. Yet a quantitative understanding of the physical…
Low-dose ionizing radiation may induce far-reaching consequences in human, especially regarding intrauterine development. Many studies have documented that the risks of in utero irradiation remain controversial and no effect is reported at…
Growing tissue and bacterial colonies are active matter systems where cell divisions and cellular motion generate active stress. Although they operate in the non-equilibrium regime, these biological systems can form large-scale ordered…
We present a quantitative method, utilising a highly sensitive quantum sensor, that extends applicability of magnetorelaxometry to biological samples at physiological temperature. The observed magnetic fields allow for non-invasive…
We investigate the mechanical interplay between the spatial organization of the actin cytoskeleton and the shape of animal cells adhering on micropillar arrays. Using a combination of analytical work, computer simulations and in vitro…
The cytoskeleton is an inhomogeneous network of semi-flexible filaments, which are involved in a wide variety of active biological processes. Although the cytoskeletal filaments can be very stiff and embedded in a dense and cross-linked…
Icosahedral virus capsids are composed of symmetrons, organized arrangements of capsomers. There are three types of symmetrons: disymmetrons, trisymmetrons, and pentasymmetrons, which have different shapes and are centered on the…
Elastically driven filaments subjected to animating compressive follower forces provide a synthetic way to mimic the oscillatory beating of active biological filaments such as eukaryotic cilia. The dynamics of such active filaments can,…
Many of the existing stochastic models of gene expression contain the first-order decay reaction term that may describe active protein degradation or dilution. If the model variable is interpreted as the molecule number, and not…
Recently, it has been found experimentally that hydrated nacre exhibits a nonlinear mechanical response. While mechanical nonlinearity has been shown to be important in other biological structures, such as spider webs, the implications of…
Detecting and quantifying non-equilibrium activity is essential for studying internally driven assemblies, including synthetic active matter and complex living systems such as cells or tissue. We discuss a non-invasive approach of measuring…
The clinical need for ultra-sensitive molecular analysis has motivated the development of several endpoint assay technologies capable of single molecule readout. These endpoint assays are now primarily limited by the affinity and…
The dynamic behavior of bundles of actin filaments growing against a loaded obstacle is investigated through a generalized version of the standard multi filaments Brownian Ratchet model in which the (de)polymerizing filaments are treated…
Contractile actomyosin network flows are crucial for many cellular processes including cell division and motility, morphogenesis and transport. How local remodeling of actin architecture tunes stress production and dissipation and regulates…
Ephemeral aggregations of bacteria are ubiquitous in the environment, where they serve as hotbeds of metabolic activity, nutrient cycling, and horizontal gene transfer. In many cases, these regions of high bacterial concentration are…
RNA pseudoknots are a kind of minimal RNA tertiary structural motifs, and their three-dimensional (3D) structures and stability play essential roles in a variety of biological functions. Therefore, to predict 3D structures and stability of…
In this experimental study fluorescent silver clusters on tRNA matrix were synthesized for the first time. Obtained complexes have two emission regions in visible part of spectrum. We have also studied our complexes using FTIR spectroscopy.…
Symbolic transformation, a coarse-graining process, is a crucial prerequisite for and has evidential influence to the symbolic time series analysis. We employ Shannon entropy for a parameter-dependent symbolization, KW (Kurths-Wessel)…