Related papers: Self-organized critical dynamics of RNA virus evol…
The SARS-CoV-2 spike (S) protein facilitates viral infection, and has been the focus of many structure determination efforts. Its flexible loop regions are known to be involved in protein binding and may adopt multiple conformations. This…
Viral transmission pathways have profound implications for public safety; it is thus imperative to establish a complete understanding of viable infectious avenues. Mounting evidence suggests SARS-CoV-2 can be transmitted via the air;…
This contribution focuses on the fascinating RNA molecule, its sequence-dependent folding driven by base-pairing interactions, the interplay between these interactions and natural evolution, and its multiple regulatory roles. The four of us…
In stochastic modeling of infectious diseases, it has been established that variations in infectivity affect the probability of a major outbreak, but not the shape of the curves during a major outbreak, which is predicted by deterministic…
The paper develops a stochastic Agent-Based Model (ABM) mimicking the spread of infectious diseases in geographical domains. The model is designed to simulate the spatiotemporal spread of SARS-CoV2 disease, known as COVID-19. Our…
Single-stranded (ss) RNA viruses self-assemble spontaneously in solutions that contain the viral RNA genome molecules and viral capsid proteins. The self-assembly of empty capsids can be understood on the basis of free energy minimization.…
Simple RNA viruses efficiently encapsulate their genome into a nano-sized protein shell: the capsid. Spontaneous co-assembly of the genome and the capsid proteins is driven predominantly by electrostatic interactions between the negatively…
We present a simple kinetic model for the assembly of small single-stranded RNA viruses that can be used to carry out analytical packaging contests between different types of RNA molecules. The RNA selection mechanism is purely kinetic and…
Travelling wave is identified as the mechanism of avalanche propagation in the continuum SOC (self-organized critical) system. Recovering the hidden causality based on a generalization of Fick's law, we lead the equivalent continuum…
During the COVID-19 pandemic, community containment measures have been implemented in different parts of the world. However, despite government recommendations and mandates, a progressive increase in mobility was observed in several sites.…
The spread of pandemic viruses and invasive species can be catastrophic for human societies and natural ecosystems. SARS-CoV-2 demonstrated that the speed of our response is critical, as each day of delay permitted exponential growth and…
An avalanche or cascade occurs when one event causes one or more subsequent events, which in turn may cause further events in a chain reaction. Avalanching dynamics are studied in many disciplines, with a recent focus on average avalanche…
The Covid-19 pandemic has taken millions of lives, demonstrating the tragedy and disruption of respiratory diseases, and how difficult they can be to manage. However, there is still significant debate in the scientific community as to which…
In the present article we introduce an epidemiological model for the investigation of the spread of epidemics caused by viruses. The model is applied specifically to COVID-19, the disease caused by the SARS-Cov-2 virus (aka "novel…
Computational prediction of RNA structures is an important problem in computational structural biology. Studies of RNA structure formation often assume that the process starts from a fully synthesized sequence. Experimental evidence,…
The question of how SARS-CoV-2 is transmitted remains surprisingly controversial today, especially with reference to airborne transmission. In fact, despite a large body of scientific evidence, health and regulatory authorities still…
Critical dynamics of cortical neurons have been intensively studied over the past decade. Neuronal avalanches provide the main experimental as well as theoretical tools to consider criticality in such systems. Experimental studies show that…
Given the urgent informational needs connected with the diffusion of infection with regard to the COVID-19 pandemic, in this paper, we propose a sampling design for building a continuous-time surveillance system. Compared with other…
At the beginning of 2020 the world has seen the initial outbreak of COVID-19, a disease caused by SARS-CoV2 virus in China. The World Health Organization (WHO) declared this disease as a pandemic on March 11 2020. As the disease spread…
With the global spread and increasing transmission rate of SARS-CoV-2, more and more laboratories and researchers are turning their attention to wastewater-based epidemiology (WBE), hoping it can become an effective tool for large-scale…