Acta Biotheoretica最新文献_第3页

Evaluating the Reliability of Data-Driven Compartmental Model (SIR or VH) on Dengue Fever for the Ongoing Outbreak in America 评估数据驱动的区室模型（SIR或VH）在美国持续爆发登革热的可靠性。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-03-16 DOI: 10.1007/s10441-026-09520-z

Amit Kumar Roy, Priti Kumar Roy

{"title":"Evaluating the Reliability of Data-Driven Compartmental Model (SIR or VH) on Dengue Fever for the Ongoing Outbreak in America","authors":"Amit Kumar Roy, Priti Kumar Roy","doi":"10.1007/s10441-026-09520-z","DOIUrl":"10.1007/s10441-026-09520-z","url":null,"abstract":"<div><p>The compartmental epidemiological model is commonly used to study dengue dynamics; some of these models precisely consider the mosquito population, and others indirectly capture its role in disease transmission term. In this article, we have performed a comparative analysis between a simple SIR model and a vector-host interaction model (VH model) by fitting the dengue fever data of the ongoing outbreak in America. Parameter estimations for both models have been performed using the Nelder-Mead simplex algorithm, considering the normalized root mean square error (NRMSE) as an optimization function. The significance and reliability of the estimated parameters towards the models’ predictions have been analysed through uncertainty and sensitivity analyses. Uncertainty analysis utilizing the Latin hypercube sampling (LHS) method has been performed to evaluate how various parameters within the models influence the basic reproduction number (<span>(mathcal {R}_0)</span>). Sensitivity analysis for the basic reproduction number (<span>(mathcal {R}_0)</span>), has been carried out by the partial rank correlation coefficients (PRCC) method. Additionally, we have computed the parameter regions ensuring the persistence of equilibrium points of both models. This study offers profound insights into model selection, parameter estimation, and forecasting future data trends for the ongoing dengue outbreak in America. However, this article focuses on exploring two key scientific questions: (1) Which type of compartmental model (SIR or VH) is more suitable to capture the trend of data on dengue fever for the ongoing outbreak in America? (2) Is America likely to face a prolonged dengue outbreak in the near future?</p></div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 2","pages":""},"PeriodicalIF":1.5,"publicationDate":"2026-03-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147466603","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Plasticity as a Historical and Philosophical Problem 可塑性作为一个历史和哲学问题

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-03-08 DOI: 10.1007/s10441-026-09521-y

Yoshinari Yoshida

引用次数: 0

Mess and Method 混乱和方法。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-03-01 DOI: 10.1007/s10441-026-09519-6

Rose Novick, Joyce C. Havstad

{"title":"Mess and Method","authors":"Rose Novick, Joyce C. Havstad","doi":"10.1007/s10441-026-09519-6","DOIUrl":"10.1007/s10441-026-09519-6","url":null,"abstract":"<div>\u0000 \u0000 <p>Bill Wimsatt and Mark Wilson are each the author of a body of work whose fruitfulness is rivaled only by its forbiddingness. Despite deep sympathies between their approaches and conclusions, their work has not yet been read together. This paper makes the case for doing so. We identify a shared question at the heart of their work: how is it that limited beings such as ourselves come to possess genuine knowledge of a complex world? We then show that Wimsatt and Wilson arrive at similar answers to this question. Over a range of topics (investigative strategies, the uses of models, and theoretical and conceptual structure), both scholars emphasize the functional messiness of science. This is complemented by a pragmatist-leaning philosophical methodology that recognizes that one of the core uses of knowledge is to scaffold the acquisition of more knowledge. The core of the paper traces the mutually supportive interplay between their philosophical doctrines and methods. We end with two brief discussions: one a defense of their winding, playful writing styles, the other a brief consideration of the relationship between their work and Arthur Fine’s natural ontological attitude.</p>\u0000 </div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 2","pages":""},"PeriodicalIF":1.5,"publicationDate":"2026-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147324384","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Emergence of Turing Instability and Pattern Formation in a Nonlinear Stochastic Spatiotemporal Epidemic Model with Reinfections 具有再感染的非线性随机时空流行病模型的图灵不稳定性和模式形成。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-02-19 DOI: 10.1007/s10441-026-09518-7

Aman Kumar Singh, Rasha Almsheks, Manish Kumar, Subramanian Ramakrishnan

{"title":"The Emergence of Turing Instability and Pattern Formation in a Nonlinear Stochastic Spatiotemporal Epidemic Model with Reinfections","authors":"Aman Kumar Singh, Rasha Almsheks, Manish Kumar, Subramanian Ramakrishnan","doi":"10.1007/s10441-026-09518-7","DOIUrl":"10.1007/s10441-026-09518-7","url":null,"abstract":"<div>\u0000 \u0000 <p>Instabilities and Turing patterns in stochastic spatiotemporal systems in which a fraction of an evolving population, after undergoing a series of dynamic transitions, returns to its original state, remain largely unexplored. Adopting an epidemic model incorporating reinfections as an exemplar of such a system, we present stability and pattern-formation analyses of the stochastic reaction-diffusion equations that represent the model. Saturation effects in epidemic spread lead to nonlinear considerations, while random environmental effects motivate a stochastic term. Turing bifurcation and the emergence of equilibrium patterns are analysed with respect to three fundamental parameters - reinfection, saturation, and noise intensity. Using higher-order stability analysis and stochastic averaging, we find the Turing instability and also uncover self–organized, distinct equilibrium patterns of infection spread. Additionally, results elucidating the effects of stochastic excitation and its intensity, as well as the competing influence of saturation and reinfection on stability and pattern formation, are presented. The results are also expected to be broadly significant beyond epidemic modelling, for studies of noise-induced instabilities and morphogenesis in spatiotemporal nonlinear dynamical systems.</p>\u0000 </div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 2","pages":""},"PeriodicalIF":1.5,"publicationDate":"2026-02-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12920722/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146225124","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

FitzHugh–Nagumo Model in Neutral Delay Differential Equation Representation 中立型时滞微分方程表示中的FitzHugh-Nagumo模型。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-02-12 DOI: 10.1007/s10441-025-09513-4

M. A. Elfouly, M. A. Sohaly, M. E. Fares

{"title":"FitzHugh–Nagumo Model in Neutral Delay Differential Equation Representation","authors":"M. A. Elfouly, M. A. Sohaly, M. E. Fares","doi":"10.1007/s10441-025-09513-4","DOIUrl":"10.1007/s10441-025-09513-4","url":null,"abstract":"<div>\u0000 \u0000 <p>We present a neutral delay differential equation (NDDE) modification of the FitzHugh–Nagumo (FHN) model. One linear and three nonlinear variants are proposed to capture the interaction between delayed effects in the membrane potential and the stimulating current, including a delayed rate (neutral) term. We derive fixed points, compute eigenvalues, and obtain Hopf conditions to map regions of stability, instability, and oscillation. Parameter studies show how the neutral delay reorganizes dynamics and modulates the robustness of nerve firing. Numerical simulations quantify frequency, ISI, amplitude, and spike counts and reproduce canonical phenotypes: regular spiking adapts to large stimulus delays, intrinsic bursting yields rapid spikes, chattering shows high-frequency bursts with moderate delays, fast-spiking exhibits high rates, and low-threshold neurons adapt to high frequencies with small delays. Overall, the NDDE representation provides a compact, physically motivated framework in which time delay governs stability and synchronization, offering insight for diagnostic modeling and potential therapies for disorders with irregular firing.</p>\u0000 </div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 2","pages":""},"PeriodicalIF":1.5,"publicationDate":"2026-02-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146163550","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Impact of Oxygen Distribution on the Tumor Necrotic Region: A Two-phase Model 氧分布对肿瘤坏死区的影响：一个两阶段模型。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-02-12 DOI: 10.1007/s10441-026-09516-9

Gopinath Sadhu, K. S. Yadav, Siddhartha Sankar Ghosh, D. C. Dalal

{"title":"The Impact of Oxygen Distribution on the Tumor Necrotic Region: A Two-phase Model","authors":"Gopinath Sadhu, K. S. Yadav, Siddhartha Sankar Ghosh, D. C. Dalal","doi":"10.1007/s10441-026-09516-9","DOIUrl":"10.1007/s10441-026-09516-9","url":null,"abstract":"<div>\u0000 \u0000 <p>In an <i>in vivo</i> situation, the tissue near a blood vessel is rich in oxygen supply compared to the one far from a blood vessel. In this article, our objective is to explore the effect of non-uniform oxygen supply on the development of the necrotic core of a tumor. We adopt a multiphase continuum-based approach to model the growth of a tumor. To simulate the model, a finite-difference-based numerical approach in line with the “Semi-Implicit Method for Pressure-Linked Equations\" (SIMPLE) algorithm is adopted. Investigations reveal that the necrotic core develops near the boundary with lower oxygen concentration. The position of the necrotic core strongly depends on the oxygen supply through the tumor boundary. The results predict asymmetrical tumor growth under unequal oxygen supply at tumor boundaries. Also, it is hinted that a tumor with a larger necrotic core grows more slowly than a tumor containing a smaller necrotic core. The present model has the potential to anticipate <i>in vivo</i> and <i>in vitro</i> situations. The findings will be beneficial for clinicians and medical practitioners in predicting the stage of a tumor.</p>\u0000 </div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 2","pages":""},"PeriodicalIF":1.5,"publicationDate":"2026-02-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146163546","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A Crisis of Population Genetics Statistics 人口遗传学统计的危机

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-02-12 DOI: 10.1007/s10441-026-09517-8

Matthew J. Maxwell

引用次数: 0

Biological Systems Depend on Communication Over Distances: A Review of the Fundamental Mechanisms, Associated challenges, and the Potential Effect of the Constrained Disorder Principle 生物系统依赖于远距离通信：约束无序原理的基本机制、相关挑战和潜在影响的综述

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-02-01 DOI: 10.1007/s10441-026-09515-w

Yaron Ilan

{"title":"Biological Systems Depend on Communication Over Distances: A Review of the Fundamental Mechanisms, Associated challenges, and the Potential Effect of the Constrained Disorder Principle","authors":"Yaron Ilan","doi":"10.1007/s10441-026-09515-w","DOIUrl":"10.1007/s10441-026-09515-w","url":null,"abstract":"<div>\u0000 \u0000 <p>Biological systems depend on communication over distances, ranging from molecular gradients to systemic neuroendocrine and neuroimmune circuits. While many distance effects in biology are explained by well-established mechanisms such as diffusion, paracrine signaling, neural conduction, and extracellular vesicle trafficking, there are also claims of long-distance influences that may be mediated by consciousness, electromagnetic fields, or hypothesized morphic fields. This review synthesizes controlled laboratory evidence, evaluates speculative mechanisms, including quantum field effects and morphic resonance, and compares them with well-replicated findings in immunology and bioelectromagnetics. The Constrained Disorder Principle (CDP) is a novel theoretical framework that posits variability within constraints as essential for biological function and may underlie some of these effects. The paper discusses the debate over methodological rigor and replicability in research on nonlocal biological effects. While evidence supports the importance of distance in biological communication through known carriers, claims regarding consciousness and morphic resonance remain unverified, despite challenges to their validity. Future research must strike a balance between openness and rigorous experimental standards.</p>\u0000 </div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 2","pages":""},"PeriodicalIF":1.5,"publicationDate":"2026-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10441-026-09515-w.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146090950","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Quantifying Uncertainty and Sensitivity in an Alzheimer’s Disease Model: A Mathematical Approach 量化阿尔茨海默病模型的不确定性和敏感性：数学方法。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2026-01-03 DOI: 10.1007/s10441-025-09514-3

Mitali Maji, Laurent Pujo-Menjouet, Subhas Khajanchi

引用次数: 0

Construction of Dinucleotide Circular Codes Based on Nucleotide Probabilities 基于核苷酸概率的二核苷酸环码构造。

IF 1.5 4区生物学

Acta Biotheoretica Pub Date : 2025-12-29 DOI: 10.1007/s10441-025-09509-0

Elena Fimmel, Christian J. Michel, Lutz Strüngmann

{"title":"Construction of Dinucleotide Circular Codes Based on Nucleotide Probabilities","authors":"Elena Fimmel, Christian J. Michel, Lutz Strüngmann","doi":"10.1007/s10441-025-09509-0","DOIUrl":"10.1007/s10441-025-09509-0","url":null,"abstract":"<div><p>The construction of a circular code through a biological process, particularly a primitive one in the absence of the protein world, has remained an open problem since the discovery of a maximal <span>(C^3)</span> self-complementary trinucleotide circular code in genes in 1996 (Arquès and Michel, 1996). Circular codes are defined by their ability to recover the correct reading frame of genes at any position. While a class of 216 such trinucleotide codes has been identified, the KL method (Koch and Lehman, 1997), based on nucleotide probability products, generates only a restricted subclass of 88 <span>(C^3)</span>-codes (Lacan and Michel, 2001). Revisiting this probabilistic framework 25 years later, we demonstrate that various classes of dinucleotide circular codes can be generated using a nucleotide probability product model (called Construction 2). We introduce the concept of transitive dinucleotide codes and prove new theorems characterizing their circularity and comma-free properties. Using codon usage from bacteria, archaea, and eukaryotes, 2 “universal” maximal dinucleotide circular codes are observed: <span>(D_{1,2}={AT, CA, CT, GA, GC, GT})</span> in the codon site <span>(1-2)</span> and <span>(D_{2,3})</span> in the codon site <span>(2-3)</span> which can be deduced from <span>(D_{1,2})</span> by 1-letter cyclical permutation <span>(alpha _{1})</span> or identically by reversing permutation <span>(D_{2,3} = alpha _{1}(D_{1,2}) = overset{longleftarrow }{D_{1,2}})</span>. Unexpectedly, we then show that, under the independence assumption, the dinucleotide code <span>(E_{1,2})</span> through Construction 2 from nucleotide frequencies in the codon sites 1 and 2, is a maximal dinucleotide circular code and is equal to the observed dinucleotide code: <span>(E_{1,2} = D_{1,2})</span>. These findings support a theoretical model in which dinucleotide circular codes may have originated from statistical properties of primitive nucleotide distributions, providing insights into the possible emergence of the genetic code.</p></div>","PeriodicalId":7057,"journal":{"name":"Acta Biotheoretica","volume":"74 1","pages":""},"PeriodicalIF":1.5,"publicationDate":"2025-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145848777","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0