Biological Physics
We investigate the collective signal response of two typical nonlinear dynamical models, the mean-field coupled overdamped bistable oscillators and the underdamped Duffing oscillators, with respect to both the additive Ornstein-Uhlenbeck…
Variability in radiation-related health risk and genetic susceptibility to radiation effects within a population is a key issue for radiation protection. Besides differences in the health and biological effects of the same radiation dose,…
Models for viral populations with high replication error rates (such as RNA viruses) rely on the quasispecies concept, in which mutational pressure beyond the so-called "Error Threshold" leads to a loss of essential genetic information and…
Biological systems with many components often exhibit seemingly critical behaviors, characterized by atypically large correlated fluctuations. Yet the underlying causes remain unclear. Here we define and examine two types of criticality.…
The dark entoptic Maxwell spot centroids seen through a blue filter, which coincide with the blue cone-free areas centered on the foveas, are shown to exhibit a structure. When observing through the green part of a blue-green exchange…
In living organisms, proteins and peptides are often under the influence of mechanical forces, especially in confined spaces such as membrane channels, ribosome exit tunnel, or proteasome gate. Due to the directional nature of proteins as…
Classical models for predicting current flow in excitable cells such as axons, originally proposed by Hodgkin and Huxley, rely on empirical voltage-gating parameters that quantify ion transport across sodium and potassium ion channels. We…
Microtubules are dynamic intracellular fibers that have been observed experimentally to undergo spontaneous self-alignment. We formulate a 3D mean-field theory model to analyze the nematic phase transition of microtubules growing and…
Latent fingerprints, if present, are crucial in identifying the suspect who was at the crime scene. If there are many latent fingerprints or the suspect is from the same household, crime investigators may have difficulty identifying whose…
Microbial motion is typically analyzed by simplified models in which trajectories exhibit straight runs (perhaps with added Gaussian noise) followed by random, discrete tumbling events. We present the results of a statistical analysis of…
Epithelial monolayers are a central building block of complex organisms. Topological defects have emerged as important elements for single cell behavior in flat epithelia. Here we theoretically study such defects in a three-dimensional…
Scaling laws illuminate Nature's fundamental biological principles and guide bioinspired materials and structural designs. In simple cases they are based on the fundamental principle that all laws of nature remain unchanged (i.e.,…
Cytoplasmic streaming, the coherent flow of cytoplasm, plays a critical role in transport and mixing over large scales in eukaryotic cells. In many large cells, this process is driven by active forces at the cell boundary, such as cortical…
Microfluidic technology has emerged as a powerful tool for studying complex biological processes with enhanced precision and control. A microfluidic chip was designed to emulate human-like microvascular networks with precise control over…
The E. coli chemosensory lattice, consisting of receptors, kinases, and adaptor proteins, is an important test case for biochemical signal processing. Kinase output is characterized by precise adaptation to a wide range of background ligand…
The tubulin-like protein FtsZ is crucial for cytokinesis in bacteria and many archaea, forming a ring-shaped structure called the Z-ring at the site of cell division. Despite extensive research, the self-assembly of Z-rings is not entirely…
Nonlinear molecular excitations in DNA have traditionally been modelled using the nonlinear Schr\"odinger equation (NLSE). An alternative approach is based on the plane-base rotator model and the SU(2)/U(1) generalized spin coherent states,…
We present a machine learning approach for predicting the organisation of corneal, glial and fibroblast cells in 3D cultures used for tissue engineering. Our machine-learning-based method uses a powerful generative adversarial network…
The transition from individual to collective motion plays a significant role in many biological processes. While the implications of different types of particle-particle interactions for the emergence of particular modes of collective…
Ion channels are protein structures that facilitate the selective passage of ions across the membrane cells of living organisms. They are known for their high conductance and high selectivity. The precise mechanism between these two…