Fractional-Order Susceptible-Infected Model: Definition and Applications to the Study of COVID-19 Main Protease

Coefficient identification in a SIS fractional-order modelling of economic losses in the propagation of COVID-19

A fractional-order SIS (Susceptible-Infectious-Susceptible) model with time-dependent coefficients is used to analyse some effects of the novel coronavirus 2019 (COVID-19). This generalized model is suitable for describing the COVID dynamics since it does not presume permanent immunity after contagion. The fractional derivative activates the memory property of the dynamics of the susceptible and infectious population time series. A coefficient identification inverse problem is posed, which consists of reconstructing the time-varying transmission and recovery rates, which are of paramount importance in practice for both medics and politicians. The inverse problem is reduced to a minimization problem, which is solved in a least squares sense. The iterative predictor-corrector algorithm reconstructs the time-dependent parameters in a piecewise-linear fashion. The economic losses emerging from social distancing using the calibrated model are also discussed. A comparison between the results obtained by the classical model and the fractional-order model is included, which is validated by ample tests with synthetic and real data.

Modeling nonlocal behavior in epidemics via a reaction-diffusion system incorporating population movement along a network

The outbreak of COVID-19, beginning in 2019 and continuing through the time of writing, has led to renewed interest in the mathematical modeling of infectious disease. Recent works have focused on partial differential equation (PDE) models, particularly reaction-diffusion models, able to describe the progression of an epidemic in both space and time. These studies have shown generally promising results in describing and predicting COVID-19 progression. However, people often travel long distances in short periods of time, leading to nonlocal transmission of the disease. Such contagion dynamics are not well-represented by diffusion alone. In contrast, ordinary differential equation (ODE) models may easily account for this behavior by considering disparate regions as nodes in a network, with the edges defining nonlocal transmission. In this work, we attempt to combine these modeling paradigms via the introduction of a network structure within a reaction-diffusion PDE system. This is achieved through the definition of a population-transfer operator, which couples disjoint and potentially distant geographic regions, facilitating nonlocal population movement between them. We provide analytical results demonstrating that this operator does not disrupt the physical consistency or mathematical well-posedness of the system, and verify these results through numerical experiments. We then use this technique to simulate the COVID-19 epidemic in the Brazilian region of Rio de Janeiro, showcasing its ability to capture important nonlocal behaviors, while maintaining the advantages of a reaction-diffusion model for describing local dynamics.

The world-wide waste web

Countries globally trade with tons of waste materials every year, some of which are highly hazardous. This trade admits a network representation of the world-wide waste web, with countries as vertices and flows as directed weighted edges. Here we investigate the main properties of this network by tracking 108 categories of wastes interchanged in the period 2001–2019. Although, most of the hazardous waste was traded between developed nations, a disproportionate asymmetry existed in the flow from developed to developing countries. Using a dynamical model, we simulate how waste stress propagates through the network and affects the countries. We identify 28 countries with low Environmental Performance Index that are at high risk of waste congestion. Therefore, they are at threat of improper handling and disposal of hazardous waste. We find evidence of pollution by heavy metals, by volatile organic compounds and/or by persistent organic pollutants, which are used as chemical fingerprints, due to the improper handling of waste in several of these countries.

The 2001–2019 web of international waste trade is investigated, allowing the identification of countries at threat of improper handling and disposal of waste. Chemical tracers are used to identify the environmental impact of waste in these countries.

A fractional-order mathematical model for COVID-19 outbreak with the effect of symptomatic and asymptomatic transmissions

The purpose of this paper is to investigate the transmission dynamics of a fractional-order mathematical model of COVID-19 including susceptible ( S ), exposed ( E ), asymptomatic infected ( I 1 ), symptomatic infected ( I 2 ), and recovered ( R ) classes named SEI 1 I 2 R model, using the Caputo fractional derivative. Here, SEI 1 I 2 R model describes the effect of asymptomatic and symptomatic transmissions on coronavirus disease outbreak. The existence and uniqueness of the solution are studied with the help of Schaefer- and Banach-type fixed point theorems. Sensitivity analysis of the model in terms of the variance of each parameter is examined, and the basic reproduction number ( R 0 ) to discuss the local stability at two equilibrium points is proposed. Using the Routh-Hurwitz criterion of stability, it is found that the disease-free equilibrium will be stable for R 0 < 1 whereas the endemic equilibrium becomes stable for R 0 > 1 and unstable otherwise. Moreover, the numerical simulations for various values of fractional-order are carried out with the help of the fractional Euler method. The numerical results show that asymptomatic transmission has a lower impact on the disease outbreak rather than symptomatic transmission. Finally, the simulated graph of total infected population by proposed model here is compared with the real data of second-wave infected population of COVID-19 outbreak in India.

Comprehensive analysis of SARS-COV-2 drug targets and pharmacological aspects in treating the COVID-19

Corona viruses are enveloped, single-stranded RNA (Ribonucleic acid) viruses and they cause pandemic diseases having a devastating effect on both human healthcare and the global economy. To date, six corona viruses have been identified as pathogenic organisms which are significantly responsible for the infection and also cause severe respiratory diseases. Among them, the novel SARS-CoV-2 (Severe acute respiratory syndrome coronavirus 2) caused a major outbreak of corona virus diseases 2019 (COVID-19). Coronaviridae family members can affects both humans and animals. In human, corona viruses cause severe acute respiratory syndrome with mild to severe outcomes. Several structural and genomics have been investigated, and the genome encodes about 28 proteins most of them with unknown function though it shares remarkable sequence identity with other proteins. There is no potent and licensed vaccine against SARS-CoV-2 and several trials are underway to investigate the possible therapeutic agents against viral infection. However, some of the antiviral drugs that have been investigated against SARS-CoV-2 are under clinical trials. In the current review we comparatively emphasize the emergence and pathogenicity of the SARS-CoV-2 and their infection and discuss the various putative drug targets of both viral and host receptors for developing effective vaccines and therapeutic combinations to overcome the viral outbreak.

A new model of Hopfield network with fractional-order neurons for parameter estimation

In this work, we study an application of fractional-order Hopfield neural networks for optimization problem solving. The proposed network was simulated using a semi-analytical method based on Adomian decomposition,, and it was applied to the on-line estimation of time-varying parameters of nonlinear dynamical systems. Through simulations, it was demonstrated how fractional-order neurons influence the convergence of the Hopfield network, improving the performance of the parameter identification process if compared with integer-order implementations. Two different approaches for computing fractional derivatives were considered and compared as a function of the fractional-order of the derivatives: the Caputo and the Caputo-Fabrizio definitions. Simulation results related to different benchmarks commonly adopted in the literature are reported to demonstrate the suitability of the proposed architecture in the field of on-line parameter estimation.

A fractional-order SIRD model with time-dependent memory indexes for encompassing the multi-fractional characteristics of the COVID-19

COVID-19 is a novel coronavirus affecting all the world since December last year. Up to date, the spread of the outbreak continues to complicate our lives, and therefore, several research efforts from many scientific areas are proposed. Among them, mathematical models are an excellent way to understand and predict the epidemic outbreaks evolution to some extent. Due to the COVID-19 may be modeled as a non-Markovian process that follows power-law scaling features, we present a fractional-order SIRD (Susceptible-Infected-Recovered-Dead) model based on the Caputo derivative for incorporating the memory effects (long and short) in the outbreak progress. Additionally, we analyze the experimental time series of 23 countries using fractal formalism. Like previous works, we identify that the COVID-19 evolution shows various power-law exponents (no just a single one) and share some universality among geographical regions. Hence, we incorporate numerous memory indexes in the proposed model, i.e., distinct fractional-orders defined by a time-dependent function that permits us to set specific memory contributions during the evolution. This allows controlling the memory effects of more early states, e.g., before and after a quarantine decree, which could be less relevant than the contribution of more recent ones on the current state of the SIRD system. We also prove our model with Italy's real data from the Center for Systems Science and Engineering (CSSE) at Johns Hopkins University.

COVID-19 and SARS-CoV-2. Modeling the present, looking at the future

Since December 2019 the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has produced an outbreak of pulmonary disease which has soon become a global pandemic, known as COronaVIrus Disease-19 (COVID-19). The new coronavirus shares about 82% of its genome with the one which produced the 2003 outbreak (SARS CoV-1). Both coronaviruses also share the same cellular receptor, which is the angiotensin-converting enzyme 2 (ACE2) one. In spite of these similarities, the new coronavirus has expanded more widely, more faster and more lethally than the previous one. Many researchers across the disciplines have used diverse modeling tools to analyze the impact of this pandemic at global and local scales. This includes a wide range of approaches - deterministic, data-driven, stochastic, agent-based, and their combinations - to forecast the progression of the epidemic as well as the effects of non-pharmaceutical interventions to stop or mitigate its impact on the world population. The physical complexities of modern society need to be captured by these models. This includes the many ways of social contacts - (multiplex) social contact networks, (multilayers) transport systems, metapopulations, etc. - that may act as a framework for the virus propagation. But modeling not only plays a fundamental role in analyzing and forecasting epidemiological variables, but it also plays an important role in helping to find cures for the disease and in preventing contagion by means of new vaccines. The necessity for answering swiftly and effectively the questions: could existing drugs work against SARS CoV-2? and can new vaccines be developed in time? demands the use of physical modeling of proteins, protein-inhibitors interactions, virtual screening of drugs against virus targets, predicting immunogenicity of small peptides, modeling vaccinomics and vaccine design, to mention just a few. Here, we review these three main areas of modeling research against SARS CoV-2 and COVID-19: (1) epidemiology; (2) drug repurposing; and (3) vaccine design. Therefore, we compile the most relevant existing literature about modeling strategies against the virus to help modelers to navigate this fast-growing literature. We also keep an eye on future outbreaks, where the modelers can find the most relevant strategies used in an emergency situation as the current one to help in fighting future pandemics.