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200 papers

Receptor-induced apoptosis is a complex signal transduction pathway involving numerous protein/protein interactions and post-transcriptional modifications. The response to death receptor stimulation varies significantly from one cell line…

Quantitative Methods · Quantitative Biology 2017-12-20 François Bertaux , Dirk Drasdo , Gregory Batt

The immune response to a pathogen has two basic features. The first is the expansion of a few pathogen-specific cells to form a population large enough to control the pathogen. The second is the process of differentiation of cells from an…

Populations and Evolution · Quantitative Biology 2014-02-04 Sean P Stromberg , Rustom Antia , Ilya Nemenman

We study two simple mathematical models of the epidemic. At first, we study the repetitive infection spreading in a simplified SIRS model including the effect of the decay of the acquired immune. The model is an intermediate model of the…

Populations and Evolution · Quantitative Biology 2024-03-13 Hidetsugu Sakaguchi , Keito Yamasaki

Sepsis, characterized by a dysregulated immune response to infection, results in significant mortality, morbidity, and healthcare costs. The timely prediction of sepsis progression is crucial for reducing adverse outcomes through early…

Machine Learning · Computer Science 2026-01-01 Alireza Rafiei , Farshid Hajati , Alireza Rezaee , Amirhossien Panahi , Shahadat Uddin

In general, the rates of infection and removal (whether through recovery or death) are nonlinear functions of the number of infected and susceptible individuals. One of the simplest models for the spread of infectious diseases is the SIR…

Populations and Evolution · Quantitative Biology 2026-05-11 Seong Jun Park , M. Y. Choi

Danger requires a strong rapid response. Speedy triggers are prone to false signals. False alarms can be costly, requiring strong negative regulators to oppose the initial triggers. Strongly opposed forces can easily be perturbed, leading…

Populations and Evolution · Quantitative Biology 2023-12-27 Steven A. Frank

Sepsis is a leading cause of mortality in intensive care units (ICUs) and costs hospitals billions annually. Treating a septic patient is highly challenging, because individual patients respond very differently to medical interventions and…

Machine Learning · Computer Science 2017-05-24 Aniruddh Raghu , Matthieu Komorowski , Leo Anthony Celi , Peter Szolovits , Marzyeh Ghassemi

We develop a theoretical approach that uses physiochemical kinetics modelling to describe cell population dynamics upon progression of viral infection in cell culture, which results in cell apoptosis (programmed cell death) and necrosis…

Quantitative Methods · Quantitative Biology 2016-12-30 Sergii Domanskyi , Joshua E. Schilling , Vyacheslav Gorshkov , Sergiy Libert , Vladimir Privman

A novel model of biological organisms is advanced, treating an organism as a self-consistent system subject to a pathogen flux. The principal novelty of the model is that it describes not some parts, but a biological organism as a whole.…

Biological Physics · Physics 2015-05-13 V. I. Yukalov , D. Sornette , E. P. Yukalova , J. -Y. Henry , J. P. Cobb

Undulation of infection levels, usually called waves, are not well understood. In this paper we propose a mathematical model that exhibits undulation and decay towards a stable state. The model is a re-interpretation of the original…

Populations and Evolution · Quantitative Biology 2022-06-08 Niko Sauer

We analyze an optimal control version of a simple SIRS epidemiology model. The policy maker can adopt policies to diminish the contact rate between infected and susceptible individuals, at a specific economic cost. The arrival of a vaccine…

Populations and Evolution · Quantitative Biology 2020-06-09 Evangelos Magirou

We propose a compartmental model for a disease with temporary immunity and secondary infections. From our assumptions on the parameters involved in the model, the system naturally evolves in three time scales. We characterize the equilibria…

Dynamical Systems · Mathematics 2024-04-10 Panagiotis Kaklamanos , Andrea Pugliese , Mattia Sensi , Sara Sottile

We consider multiple diseases spreading in a static Configuration Model network. We make standard assumptions that infection transmits from neighbor to neighbor at a disease-specific rate and infected individuals recover at a…

Populations and Evolution · Quantitative Biology 2015-06-11 Joel C. Miller

In this paper we study a nonlinear reaction-diffusion system which models an infectious disease caused by bacteria such as those for cholera. One of the significant features in this model is that a certain portion of the recovered human…

Analysis of PDEs · Mathematics 2022-02-01 Hong-Ming Yin , Jun Zou

A simple, but ``classical``, stochastic model for epidemic spread in a finite, but large, population is studied. The progress of the epidemic can be divided into three different phases that requires different tools to analyse. Initially the…

Populations and Evolution · Quantitative Biology 2018-05-29 Åke Svensson

AIDS is the pandemic of our era. A disease that scares us not only because it is fatal but also because its insidious time course makes us all potential carriers long before it hands us our heads in a basket. The strange three stage…

Adaptation and Self-Organizing Systems · Physics 2009-10-31 Uri Hershberg , Yoram Louzoun , Henri Atlan , Sorin Solomon

Assessing causal effects in the presence of unobserved confounding is a challenging problem. Existing studies leveraged proxy variables or multiple treatments to adjust for the confounding bias. In particular, the latter approach attributes…

Methodology · Statistics 2023-10-17 Yong Wu , Mingzhou Liu , Jing Yan , Yanwei Fu , Shouyan Wang , Yizhou Wang , Xinwei Sun

In this work we analyze mathematically the consequences and effectiveness of strategies to control an epidemic in the framework of classical SEIR models with multiple parallel infectious stages. We define the mathematical concept of a…

Dynamical Systems · Mathematics 2023-08-17 Annibal Figueiredo , Tarcısio Marciano da Rocha Filho

The disease trajectory for clinical sepsis, in terms of temporal cytokine and phenotypic dynamics, can be interpreted as a random dynamical system. The ability to make accurate predictions about patient state from clinical measurements has…

Quantitative Methods · Quantitative Biology 2020-07-30 Dale Larie , Gary An , Chase Cockrell

Sepsis is a life-threatening organ malfunction caused by the host's inability to fight infection, which can lead to death without proper and immediate treatment. Therefore, early diagnosis and medical treatment of sepsis in critically ill…

Machine Learning · Computer Science 2023-04-14 Kevin Ewig , Xiangwen Lin , Tucker Stewart , Katherine Stern , Grant O'Keefe , Ankur Teredesai , Juhua Hu