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Zebrafish are a common model organism used to identify new disease therapeutics. High-throughput drug screens can be performed on larval zebrafish in multi-well plates by observing changes in behaviour following a treatment. Analysis of…
Chlamydiae are bacteria with an interesting unusual developmental cycle. A single bacterium in its infectious form (elementary body, EB) enters the host cell, where it converts into its dividing form (reticulate body, RB), and divides by…
The near-surface swimming patterns of bacteria are strongly determined by the hydrodynamic interactions between bacteria and the surface, which trap bacteria in smooth circular trajectories that lead to inefficient surface exploration.…
Resistance to chemotherapy and molecularly targeted therapies is a major factor in limiting the effectiveness of cancer treatment. In many cases, resistance can be linked to genetic changes in target proteins, either pre-existing or…
We study a generalization of the classical contact process (SIS epidemic model) in a directed graph $G$. Our model is a continuous-time interacting particle system in which at every time, each vertex is either healthy or infected, and each…
The gram-negative bacterium Yersinia pestis, the aetiological agent of bubonic plague, is one the deadliest pathogens known to man. Despite its historical reputation, plague is a modern disease which annually afflicts thousands of people.…
A mathematical modeling of Hepatitis C Virus (HCV) dynamics has been presented in this paper. The proposed model, which involves four coupled ordinary differential equations, describes the interaction of target cells (hepatocytes), infected…
In this work we introduce a differential equation model with time-delay that describes the three-stage dynamics and the two time scales observed in HIV infection. Assuming that the virus has high mutation and rapid reproduction rates that…
Tuberculosis (TB) is an airborne disease caused by the bacterium Mycobacterium tuberculosis (M. tb). Prior to the COVID-19 pandemic, TB was the leading cause of death from an infectious agent globally. However, most people exposed to M. tb…
Understanding the interactions between viruses and surfaces or interfaces is important, as they provide the principles underpinning the cleaning and disinfection of contaminated surfaces. Yet, the physics of such interactions is currently…
Crimean-Congo haemorrhagic fever (CCHF) is a tick-borne zoonotic disease caused by the Crimean-Congo hemorrhagic fever virus (CCHFV). Ticks belonging to the genus \textit{Hyalomma} are the main vectors and reservoir for the virus. It is…
Nonequilibrium dynamics of biomembranes with active inclusions is considered. The inclusions represent protein molecules which perform cyclic internal conformational motions driven by the energy brought with ATP ligands. As protein…
Zinc-fingers, which widely exist in eukaryotic cell and play crucial roles in life processes, depend on the binding of zinc ion for their proper folding. To computationally study the zinc coupled folding of the zinc-fingers, charge transfer…
The evolutionary dynamics of human Influenza A virus presents a challenging theoretical problem. An extremely high mutation rate allows the virus to escape, at each epidemic season, the host immune protection elicited by previous…
We study the early stages of viral infection, and the distribution of times to obtain a persistent infection. The virus population proliferates by entering and reproducing inside a target cell until a sufficient number of new virus…
We consider a non-attractive three state contact process on $\mathbb Z$ and prove that there exists a regime of survival as well as a regime of extinction. In more detail, the process can be regarded as an infection process in a dynamic…
Understanding the system level adaptive changes taking place in an organism in response to variations in the environment is a key issue of contemporary biology. Current modeling approaches such as the constraint-based flux balance analyses…
The contact process is a simple model for the spread of an infection in a structured population. We investigate the case when the underlying structure evolves dynamically as a degree-dependent dynamical percolation model. Starting with a…
Cell adhesion complexes (CACs), which are activated by ligand binding, play key roles in many cellular functions ranging from cell cycle regulation to mediation of cell extracellular matrix adhesion. Inspired by single molecule pulling…
During primary HIV infection, the kinetics of plasma virus concentrations and CD4+ cell counts is very complex. Parametric and nonparametric models have been suggested for fitting repeated measurements of these markers. Alternatively,…