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An investigation was conducted to study the robustness of the results obtained from the cellular automata model which describes the spread of the HIV infection within lymphoid tissues [R. M. Zorzenon dos Santos and S. Coutinho, Phys. Rev.…

Biological Physics · Physics 2008-07-21 P. H. Figueirêdo , S. Coutinho , R. M. Zorzenon dos Santos

Dynamic models have been successfully used in producing estimates of HIV epidemics at the national level due to their epidemiological nature and their ability to estimate prevalence, incidence, and mortality rates simultaneously. Recently,…

Methodology · Statistics 2024-01-11 Le Bao , Xiaoyue Niu , Tim Brown , Jeffrey W. Imai-Eaton

Infectious disease dynamics operate across multiple biological scales, with within-host viral dynamics being a key driver of between-host transmission. However, while models that explicitly link these scales exist, none have been developed…

Applications · Statistics 2026-04-23 Dylan J. Morris , Lauren Kennedy , Andrew J. Black

The adaptive immune system is a natural diagnostic and therapeutic. It recognizes threats earlier than clinical symptoms manifest and neutralizes antigen with exquisite specificity. Recognition specificity and broad reactivity is enabled…

Quantitative Methods · Quantitative Biology 2019-07-26 Alex J. Brown , Igor Snapkov , Rahmad Akbar , Milena Pavlović , Enkelejda Miho , Geir K. Sandve , Victor Greiff

Microbes are everywhere, including in and on our bodies, and have been shown to play key roles in a variety of prevalent human diseases. Consequently, there has been intense interest in the design of bacteriotherapies or "bugs as drugs,"…

Machine Learning · Statistics 2020-04-13 Travis E. Gibson , Georg K. Gerber

Gut microbial composition has been linked to multiple health outcomes. Yet, temporal analysis of this composition had been limited to deterministic models. In this paper, we introduce a probabilistic model for the dynamics of intestinal…

Quantitative Methods · Quantitative Biology 2018-09-03 Ruiqi Zhong , Tyler Joseph , Joao B Xavier , Itsik Pe'er

Clinicians need to predict patient outcomes with high accuracy as early as possible after disease inception. In this manuscript, we show that patient-to-patient variability sets a fundamental limit on outcome prediction accuracy for a…

Quantitative Methods · Quantitative Biology 2016-02-17 Manuel Mai , Kun Wang , Greg Huber , Michael Kirby , Mark D. Shattuck , Corey S. O'Hern

When our immune system encounters foreign antigens (i.e., from pathogens), the B cells that produce our antibodies undergo a cyclic process of proliferation, mutation, and selection, improving their ability to bind to the specific antigen.…

The adaptive immune system provides a diverse set of molecules that can mount specific responses against a multitude of pathogens. Memory is a key feature of adaptive immunity, which allows organisms to respond more readily upon…

Populations and Evolution · Quantitative Biology 2021-04-14 Oskar H Schnaack , Armita Nourmohammad

The hematopoietic system has a highly regulated and complex structure in which cells are organized to successfully create and maintain new blood cells. Feedback regulation is crucial to tightly control this system, but the specific…

The initial reaction of the body to pathogenic microbial infection or severe tissue trauma is an acute inflammatory response. The magnitude of such a response is of critical importance, since an uncontrolled response can cause further…

Hemostasis and thrombosis are often thought as two sides of the same clotting mechanism whereas hemostasis is a natural protective mechanism to prevent bleeding and thrombosis is a blood clot abnormally formulated inside a blood vessel,…

Tissues and Organs · Quantitative Biology 2019-11-19 Limei Cheng , Guo-Wei Wei , Tarek Leil

An individual-based model of the infectious disease spread among the urban population is considered. A system of stochastic equations, which describes changes in quantities of four population groups, susceptible, exposed, infected…

Populations and Evolution · Quantitative Biology 2011-11-11 Vasiliy Leonenko

Polymorphism has been observed in viral capsid assembly, demonstrating the ability of identical protein dimers to adopt multiple geometries under the same solution conditions. A well-studied example is the hepatitis B virus (HBV), which…

Biological Physics · Physics 2026-01-26 Kevin Yang , Juana Martin Gonzalez , Alireza Ramezani , Paul van der Schoot , Roya Zandi

Cellular signaling is essential in information processing and decision making. Therefore, a variety of experimental approaches have been developed to study signaling on bulk and single-cell level. Single-cell measurements of signaling…

Quantitative Methods · Quantitative Biology 2019-04-18 Carolin Loos , Jan Hasenauer

Realistic description of patient-specific mechanical properties of clotting dynamics presents a major challenge. Available patient-specific data falls short of robustly characterizing myriads of complex dynamic interactions that happen…

Molecular Networks · Quantitative Biology 2017-05-23 Jayavel Arumugam , Arun Srinivasa

In this article a generalized mathematical model describing the interactions between malignant tumour and immune system with discrete time delay incorporated into the system is considered. Time delay represents the time required to generate…

Tissues and Organs · Quantitative Biology 2015-11-05 Monika Joanna Piotrowska

Existing sequential generalized estimating equation methodology for longitudinal and group-correlated data focuses on narrow hypotheses concerning treatment efficacy and often makes modeling assumptions that impede the desirable robustness…

Methodology · Statistics 2026-03-16 Nathan T. Provost , Abdus S. Wahed

The notions of integral input-to-state stability (iISS) and input-to-state stability (ISS) have been effective in addressing nonlinearities globally without domain restrictions in analysis and design of control systems. In particular, they…

Optimization and Control · Mathematics 2020-05-21 Hiroshi Ito

Immune cells learn about their antigenic targets using tactile sense: during recognition, a highly organized yet dynamic motif, named immunological synapse, forms between immune cells and antigen-presenting cells (APCs). Via synapses,…

Biological Physics · Physics 2018-12-12 Miloš Knežević , Shenshen Wang
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