Computational and Mathematical Biophysics最新文献

{"title":"A systematic review, meta-analysis and economic evaluation on Neonatal cpap","authors":"R. Keerthan, P. Nagaseshu, G. Gopalan, K. Kachroo, Jitendra Sharma","doi":"10.1515/cmb-2022-0133","DOIUrl":"https://doi.org/10.1515/cmb-2022-0133","url":null,"abstract":"Abstract The review mainly focuses on the goals to evaluate the clinical and cost effectiveness of neonatal CPAP in a decrease of Mortality, Length of Stay, Respiratory support, Extubation and Intubation. Introduction: Inclusion criteria: This review is conducted in neonates with respiratory failure, Pneumonia sepsis, necrotizing infections, Pneumothorax, Broncho pulmonary distress, respiratory distress syndrome (RDS), COVID-19, and other comorbidities also included. Methods: The databases like PubMed, Google Scholar, and Cochrane were used in this review. Depending on inclusion criteria the full-text articles were assessed and chosen studies were recovered by methodological quality. Results: one twenty-six studies are retrieved which met the inclusion criteria and the extracted studies were pooled statistically and their outcomes were measured. All the studies explain the efficacy of CPAP by reducing Mortality, Length of Stay, Respiratory support, Extubation and Intubation. Conclusion: Currently the evidence states that CPAP reduces Mortality, Length of Stay, Respiratory support, Extubation and Intubation","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"68 - 86"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42517814","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Optimal Control for a Tuberculosis Model with Exogenous Reinfection under the Influence of Stigma","authors":"Remilou F. Liguarda, Randy L. Caga-anan, Wolfgang Bock","doi":"10.22541/au.164397215.50939781/v1","DOIUrl":"https://doi.org/10.22541/au.164397215.50939781/v1","url":null,"abstract":"Abstract Often described as the world’s most deadly infectious disease, Tuberculosis remains a serious health threat in many parts of the world, especially in the developing countries. One of the social barriers hindering TB patients to seek and complete medical attention is stigmatization. In this study, we incorporated stigmatization on a model published by Feng et al. last 2000. We obtained the basic reproduction number and showed conditions where multiple endemic equilibrium will exist depending on a reinfection threshold. The model predicted a significant increase in the basic reproduction number as the level of stigmatization increases. We used optimal control theory to investigate the effect of controls to combat stigmatization and compare these controls with the usual controls such as improving treatment and minimizing reinfection. Simulations show that although stigmatization controls are helpful, they are not enough to successfully control the disease. A combination of all the controls will be ideal and some optimal rates of doing it over time are given, depending on the perceived cost of implementation.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"249 - 261"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41696331","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Impact of disease on a two-patch eco-epidemic model in presence of prey dispersal","authors":"Sangeeta Saha, Guruprasad Samanta","doi":"10.1515/cmb-2022-0139","DOIUrl":"https://doi.org/10.1515/cmb-2022-0139","url":null,"abstract":"Abstract The present model is dealt with prey-predator interactions in two different patches where only prey species are allowed to disperse among the patches. Each of these two patches has different predator population but the predator in Patch-2 only is affected with a disease. The proposed model is biologically welldefined. Also, the feasibility of the equilibrium points and corresponding stability conditions are analysed. It is found that the disease among predator, even in one patch, makes an important role to control the whole system dynamics as it starts to oscillates by regulating the disease transmission rate. Moreover, the disease transmission rate has a stabilizing as well as destabilizing effect on the system dynamics. From the results, it is observed that a high dispersal rate decreases the count of infected predator in a patch in presence of prey dispersal. There is another interesting result: it is observed that the prey dispersal cannot destabilize the coexistence state, i.e., the system which is stable in absence of dispersal remains stable when the prey species disperse between two patches.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"199 - 230"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43020052","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Global stability dynamics and sensitivity assessment of COVID-19 with timely-delayed diagnosis in Ghana","authors":"S. Moore, Hetsron L. Nyandjo-Bamen, Olivier Menoukeu-Pamen, Joshua Kiddy K. Asamoah, Zhen Jin","doi":"10.1515/cmb-2022-0134","DOIUrl":"https://doi.org/10.1515/cmb-2022-0134","url":null,"abstract":"Abstract In this paper, we study the dynamical effects of timely and delayed diagnosis on the spread of COVID-19 in Ghana during its initial phase by using reported data from March 12 to June 19, 2020. The estimated basic reproduction number, ℛ0, for the proposed model is 1.04. One of the main focus of this study is global stability results. Theoretically and numerically, we show that the disease persistence depends on ℛ0. We carry out a local and global sensitivity analysis. The local sensitivity analysis shows that the most positive sensitive parameter is the recruitment rate, followed by the relative transmissibility rate from the infectious with delayed diagnosis to the susceptible individuals. And that the most negative sensitive parameters are: self-quarantined, waiting time of the infectious for delayed diagnosis and the proportion of the infectious with timely diagnosis. The global sensitivity analysis using the partial rank correlation coefficient confirms the directional flow of the local sensitivity analysis. For public health benefit, our analysis suggests that, a reduction in the inflow of new individuals into the country or a reduction in the inter community inflow of individuals will reduce the basic reproduction number and thereby reduce the number of secondary infections (multiple peaks of the infection). Other recommendations for controlling the disease from the proposed model are provided in Section 7.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"87 - 104"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48252018","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A surrogate Bayesian framework for a SARS-CoV-2 data driven stochastic model","authors":"M. Ganesh, S. Hawkins","doi":"10.1515/cmb-2022-0131","DOIUrl":"https://doi.org/10.1515/cmb-2022-0131","url":null,"abstract":"Abstract Dynamic compartmentalized data (DCD) and compartmentalized differential equations (CDEs) are key instruments for modeling transmission of pathogens such as the SARS-CoV-2 virus. We describe an effi-cient nowcasting algorithm for modeling transmission of SARS-CoV-2 with uncertainty quantification for the COVID-19 impact. A key concern for transmission of SARS-CoV-2 is under-reporting of cases, and this is addressed in our data-driven model by providing an estimate for the detection rate. Our novel top-down model is based on CDEs with stochastic constitutive parameters obtained from the DCD using Bayesian inference. We demonstrate the robustness of our algorithm for simulation studies using synthetic DCD, and nowcasting COVID-19 using real DCD from several regions across five continents.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"34 - 67"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49488512","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Reaction Rate Theory-Based Mathematical Approximation for the Amount of Time it Takes For Cellular Respiration to Occur","authors":"Archit Chaturvedi","doi":"10.31219/osf.io/sca84","DOIUrl":"https://doi.org/10.31219/osf.io/sca84","url":null,"abstract":"Abstract The venerable process of cellular respiration is essential for cells to produce energy from glucose molecules, in order to carry out cellular work. The process is responsible for producing molecules of ATP, a molecule which is thermodynamically coupled with other biochemical and biophysical processes in order to provide energy for such processes to occur. While the process of cellular respiration is essential to biology, one cycle of the process occurs only in a matter of milliseconds, and so, it would be impractical to measure the time it takes for the process to occur through conventional means. Therefore, using concepts from reaction rate theory, particularly Marcus Theory of electron transfer, Michaelis-Menten kinetics for enzymatic catalysis, and the hard-sphere model of collision theory, I formulate and propose a mathematical approximation for the amount of time it takes for cellular respiration to occur. Through this heuristic approach, quantitatively knowing the amount of time it takes for one cycle of cellular respiration to occur could potentially have future applications in biological research.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"18 - 33"},"PeriodicalIF":0.0,"publicationDate":"2021-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45773247","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Regulation of Lysosomal Associated Membrane Protein 3 (LAMP3) in Lung Epithelial Cells by Coronaviruses (SARS-CoV-1/2) and Type I Interferon Signaling","authors":"C. Ramana","doi":"10.1101/2021.04.28.441840","DOIUrl":"https://doi.org/10.1101/2021.04.28.441840","url":null,"abstract":"Abstract Severe Acute Respiratory Syndrome CoronaVirus-2 (SARS-CoV-2) infection is a major risk factor for mortality and morbidity in critical care hospitals around the world. Lung epithelial type II cells play a major role in the recognition and clearance of respiratory viruses as well as repair of lung injury in response to environmental toxicants. Gene expression profiling studies revealed that mouse lung epithelial type II cells express several cell-specific markers including surfactant proteins and Lysosomal associated membrane protein 3 (LAMP3) located in lysosomes, endosomes and lamellar bodies. These intracellular organelles are involved in vesicular transport and facilitate viral entry and release of the viral genome into the host cell cytoplasm. In this study, regulation of LAMP3 expression in human lung epithelial cells by several respiratory viruses and type I interferon signaling was investigated. Respiratory viruses including SARS-CoV-1 and SARS-CoV-2 significantly induced LAMP3 expression in lung epithelial cells within 24 hours after infection that required the presence of ACE2 viral entry receptors. Time course experiments revealed that the induced expression of LAMP3 was correlated with the induced expression of Interferon–beta (IFNB1) and STAT1 at mRNA levels. LAMP3 was also induced by direct IFN-beta treatment in multiple lung epithelial cell lines or by infection with influenza virus lacking the non-structural protein1(NS1) in NHBE bronchial epithelial cells. LAMP3 expression was also induced by several respiratory viruses in human lung epithelial cells including RSV and HPIV3. Location in lysosomes and endosomes aswell as induction by respiratory viruses and type I Interferon suggests that LAMP3 may have an important role in inter-organellar regulation of innate immunity and a potential target for therapeutic modulation in health and disease. Furthermore, bioinformatics revealed that a subset of lung type II genes were differentially regulated in the lungs of COVID-19 patients.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"10 1","pages":"167 - 183"},"PeriodicalIF":0.0,"publicationDate":"2021-04-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45272954","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A Study of Within-Host Dynamics of Dengue Infection incorporating both Humoral and Cellular Response with a Time Delay for Production of Antibodies","authors":"Deva Siva Sai Murari Kanumoori, D. Prakash, D. Vamsi, C. Sanjeevi","doi":"10.1515/cmb-2020-0118","DOIUrl":"https://doi.org/10.1515/cmb-2020-0118","url":null,"abstract":"Abstract a. Background: Dengue is an acute illness caused by a virus. The complex behaviour of the virus in human body can be captured using mathematical models. These models helps us to enhance our understanding on the dynamics of the virus. b. Objectives: We propose to study the dynamics of within-host epidemic model of dengue infection which incorporates both innate immune response and adaptive immune response (Cellular and Humoral). The proposed model also incorporates the time delay for production of antibodies from B cells. We propose to understand the dynamics of the this model using the dynamical systems approach by performing the stability and sensitivity analysis. c. Methods used: The basic reproduction number (R0) has been computed using the next generation matrix method. The standard stability analysis and sensitivity analysis were performed on the proposed model. d. Results: The critical level of the antibody recruitment rate(q) was found to be responsible for the existence and stability of various steady states. The stability of endemic state was found to be dependent on time delay(τ). The sensitivity analysis identified the production rate of antibodies (q) to be highly sensitive parameter. e. Conclusions: The existence and stability conditions for the equilibrium points have been obtained. The threshold value of time delay (τ0) has been computed which is critical for change in stability of the endemic state. Sensitivity analysis was performed to identify the crucial and sensitive parameters of the model.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"9 1","pages":"66 - 80"},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1515/cmb-2020-0118","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45912385","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Stability analysis of a fractional ordered COVID-19 model","authors":"Meghadri Das, G. Samanta","doi":"10.1515/cmb-2020-0116","DOIUrl":"https://doi.org/10.1515/cmb-2020-0116","url":null,"abstract":"Abstract The main purpose of this work is to study transmission dynamics of COVID-19 in Italy 2020, where the first case of Coronavirus disease 2019 (COVID-19) in Italy was reported on 31st January 2020. Taking into account the uncertainty due to the limited information about the Coronavirus (COVID-19), we have taken the modified Susceptible-Asymptomatic-Infectious-Recovered (SAIR) compartmental model under fractional order framework. We have formulated our model by subdividing infectious compartment into two sub compartments (reported and unreported) and introduced hospitalized class. In this work, we have studied the local and global stability of the system at different equilibrium points (disease free and endemic) and calculated sensitivity index for Italy scenario. The validity of the model is justified by comparing real data with the results obtained from simulations.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"9 1","pages":"22 - 45"},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1515/cmb-2020-0116","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46396780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Modelling of a two prey and one predator system with switching effect","authors":"Sangeeta Saha, G. Samanta","doi":"10.1515/cmb-2020-0120","DOIUrl":"https://doi.org/10.1515/cmb-2020-0120","url":null,"abstract":"Abstract Prey switching strategy is adopted by a predator when they are provided with more than one prey and predator prefers to consume one prey over others. Though switching may occur due to various reasons such as scarcity of preferable prey or risk in hunting the abundant prey. In this work, we have proposed a prey-predator system with a particular type of switching functional response where a predator feeds on two types of prey but it switches from one prey to another when a particular prey population becomes lower. The ratio of consumption becomes significantly higher in the presence of prey switching for an increasing ratio of prey population which satisfies Murdoch’s condition [15]. The analysis reveals that two prey species can coexist as a stable state in absence of predator but a single prey-predator situation cannot be a steady state. Moreover, all the population can coexist only under certain restrictions. We get bistability for a certain range of predation rate for first prey population. Moreover, varying the mortality rate of the predator, an oscillating system can be obtained through Hopf bifurcation. Also, the predation rate for the first prey can turn a steady-state into an oscillating system. Except for Hopf bifurcation, some other local bifurcations also have been studied here. The figures in the numerical simulation have depicted that, if there is a lesser number of one prey present in a system, then with time, switching to the other prey, in fact, increases the predator population significantly.","PeriodicalId":34018,"journal":{"name":"Computational and Mathematical Biophysics","volume":"9 1","pages":"90 - 113"},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1515/cmb-2020-0120","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41792963","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}