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Dynamics and bifurcation of a hybrid competition model with applications to adaptive cancer therapy 混合竞争模型的动力学和分岔及其在适应性癌症治疗中的应用。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-27 DOI: 10.1016/j.mbs.2026.109636
Huansheng Sun , Biao Tang , Jonathan E. Forde , Yanni Xiao
Adaptive therapy is a novel cancer treatment strategy that proposes to tackle cancer drug resistance by leveraging resource competition between drug-sensitive and resistant cells. Because the underlying mathematical mechanisms of adaptive therapy remain unclear, determining the most effective rates of intervention is a significant challenge. In this paper, we propose a competition model incorporating fixed-time periodic tumor measurements with impulsive interventions performed if the number of tumor cells exceeds a threshold value. For the proposed model, we find a novel type of periodic solutions. Specifically, we demonstrate the existence of various (ℓ, m)T boundary periodic solutions and rigorously analyze their stability. Using bifurcation theory, we further prove the existence and stability of positive periodic solutions. Further, we perform numerical simulations to study these bifurcations with respect to key parameters such as the threshold value (TV) and the monitoring period (T). Numerical studies find that time to treatment failure exhibits a nonlinear dependence on the killing rate of drug-sensitive cells, i.e., it initially increases, reaches a plateau, and subsequently declines as the killing rate increases, revealing that maximizing the killing rate does not yield optimal therapeutic outcomes. The finding indicates that incorporating a threshold can extend patient’s survival time, implying the therapeutic benefit of threshold-based adaptive therapy for tumor control.
适应性治疗是一种新的癌症治疗策略,提出利用药物敏感细胞和耐药细胞之间的资源竞争来解决癌症耐药性。由于适应性治疗的基本数学机制尚不清楚,确定最有效的干预率是一个重大挑战。在本文中,我们提出了一个竞争模型,将固定时间周期肿瘤测量与脉冲干预相结合,如果肿瘤细胞的数量超过阈值。对于所提出的模型,我们发现了一种新的周期解类型。具体地,我们证明了各种(r, m)T边界周期解的存在性,并严格地分析了它们的稳定性。利用分岔理论,进一步证明了正周期解的存在性和稳定性。此外,我们进行数值模拟来研究这些分支与关键参数(如阈值(TV)和监测周期(T))的关系。数值研究发现,治疗失败时间与药物敏感细胞的杀伤率呈非线性依赖关系,即随着杀伤率的增加,治疗失败时间开始增加,达到平台期,随后下降,表明杀伤率最大化并不能产生最佳治疗效果。该发现表明,结合阈值可以延长患者的生存时间,这意味着基于阈值的适应性治疗对肿瘤控制的治疗益处。
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引用次数: 0
Propagation through a barrier: Numerical analysis of a reaction-diffusion model with free boundary 障壁传播:具有自由边界的反应扩散模型的数值分析。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-22 DOI: 10.1016/j.mbs.2026.109624
Narges Shabgard, Timothy M. Schaerf, Yihong Du
<div><div>We try to better understand how a spatial barrier may affect the spreading of an invading species via numerical analysis of some variations of a free boundary model in [1, 2] (where only homogeneous environment was considered). Here we incorporate a spatial barrier by replacing a bistable growth term <em>f</em>(<em>u</em>) in the model with <span><math><mrow><mi>f</mi><mo>(</mo><mi>x</mi><mo>,</mo><mi>u</mi><mo>)</mo><mo>=</mo><mi>u</mi><mo>(</mo><mi>r</mi><mo>(</mo><mi>x</mi><mo>)</mo><mo>−</mo><mi>u</mi><mo>)</mo><mo>(</mo><mi>u</mi><mo>−</mo><mi>θ</mi><mo>)</mo></mrow></math></span>, where <em>θ</em> ∈ (0, 1/2) and <span><math><mrow><mi>r</mi><mo>(</mo><mi>x</mi><mo>)</mo><mo>=</mo><mn>1</mn></mrow></math></span> except in the barrier region <span><math><mrow><mo>[</mo><msub><mi>x</mi><mn>0</mn></msub><mo>,</mo><msub><mi>x</mi><mn>0</mn></msub><mo>+</mo><mi>l</mi><mo>]</mo></mrow></math></span>, in which <em>r</em>(<em>x</em>) becomes negative away from its boundary, representing the biological assumption that the environment becomes hostile to the species inside the barrier. A parameter <em>α</em> > 0 in the expression of <em>r</em>(<em>x</em>) is used to characterize the severity of the environmental hostility. We find that when all the other parameters are fixed there exists a critical value <em>l</em>* of the barrier length <em>l</em> such that successful spreading is continued past the barrier region when <em>l</em> < <em>l</em>*, and the propagation is blocked when <em>l</em> > <em>l</em>*. Similarly we show numerically that when all the other parameters are fixed, there is a critical value <em>α</em>* of the barrier severity <em>α</em> such that propagation can be continued when <em>α</em> < <em>α</em>*, but it is blocked when <em>α</em> > <em>α</em>*. The dependence of <em>l</em>* (respectively <em>α</em>*) on the other parameters are also analysed.</div><div>To include temporal fluctuations of the environment, we further replace <em>r</em>(<em>x</em>) by <em>a</em>(<em>t</em>)<em>r</em>(<em>x</em>) with <em>a</em>(<em>t</em>) a positive time-periodic function of average 1, to represent the periodic modulation of the environment. Our numerical simulations suggest that increasing the magnitude of temporal variation enhances the ability of species invasion, while increasing the frequency of such variation reduces this ability.</div><div>To see how Allee effect may influence the invasion with a barrier, our results based on a bistable <em>f</em> discussed above are compared with that for a model obtained from a standard monostable function (no Allee effect), namely <span><math><mrow><mi>f</mi><mo>=</mo><mi>u</mi><mo>[</mo><mi>r</mi><mo>(</mo><mi>x</mi><mo>)</mo><mo>−</mo><mi>u</mi><mo>]</mo></mrow></math></span> with the same <em>r</em>(<em>x</em>). A parallel numerical analysis shows that qualitatively everything is the same in the monostable case, including the numerical results incorporating seasonal changes (w
我们试图通过数值分析[1,2]中自由边界模型的一些变化(仅考虑同质环境)来更好地理解空间屏障如何影响入侵物种的传播。在这里,我们通过将模型中的双稳态生长项f(u)替换为f(x,u)=u(r(x)-u)(u-θ)来合并空间屏障,其中θ ∈ (0,1 /2)和r(x)=1,但屏障区域[x0,x0+l]除外,其中r(x)在远离其边界的地方变为负值,表示环境对屏障内的物种变得敌对的生物学假设。r(x)表达式中的参数α > 0用于表征环境敌意的严重程度。我们发现,当所有其他参数都固定时,存在一个势垒长度l的临界值l*,当l  l*时,成功扩展能继续通过势垒区域。同样,我们用数值方法表明,当所有其他参数都固定时,存在一个势垒严重性α的临界值α*,使得当α  α*时传播可以继续。还分析了l*(分别为α*)对其他参数的依赖性。为了包括环境的时间波动,我们进一步用a(t)代替r(x), r(x)用平均为1的正时间周期函数a(t)表示环境的周期调制。我们的数值模拟表明,增加时间变异的幅度增强了物种入侵的能力,而增加这种变异的频率则降低了这种能力。为了了解Allee效应如何影响屏障的入侵,我们将基于上面讨论的双稳态f的结果与由标准单稳态函数(无Allee效应)即f=u[r(x)-u]得到的模型的结果进行比较,其中r(x)相同。并行数值分析表明,在单稳态情况下,包括考虑季节变化(用A (t)r(x)代替r(x))的数值结果,在定性上一切都是相同的。然而,这些数值模拟表明,在双稳态情况下(包括Allee效应),入侵比单稳态情况下(没有Allee效应)更有可能越过屏障,这表明Allee效应可能增加入侵跨越屏障的机会。谨献给阮世贵教授60岁寿辰。
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Here we incorporate a spatial barrier by replacing a bistable growth term &lt;em&gt;f&lt;/em&gt;(&lt;em&gt;u&lt;/em&gt;) in the model with &lt;span&gt;&lt;math&gt;&lt;mrow&gt;&lt;mi&gt;f&lt;/mi&gt;&lt;mo&gt;(&lt;/mo&gt;&lt;mi&gt;x&lt;/mi&gt;&lt;mo&gt;,&lt;/mo&gt;&lt;mi&gt;u&lt;/mi&gt;&lt;mo&gt;)&lt;/mo&gt;&lt;mo&gt;=&lt;/mo&gt;&lt;mi&gt;u&lt;/mi&gt;&lt;mo&gt;(&lt;/mo&gt;&lt;mi&gt;r&lt;/mi&gt;&lt;mo&gt;(&lt;/mo&gt;&lt;mi&gt;x&lt;/mi&gt;&lt;mo&gt;)&lt;/mo&gt;&lt;mo&gt;−&lt;/mo&gt;&lt;mi&gt;u&lt;/mi&gt;&lt;mo&gt;)&lt;/mo&gt;&lt;mo&gt;(&lt;/mo&gt;&lt;mi&gt;u&lt;/mi&gt;&lt;mo&gt;−&lt;/mo&gt;&lt;mi&gt;θ&lt;/mi&gt;&lt;mo&gt;)&lt;/mo&gt;&lt;/mrow&gt;&lt;/math&gt;&lt;/span&gt;, where &lt;em&gt;θ&lt;/em&gt; ∈ (0, 1/2) and &lt;span&gt;&lt;math&gt;&lt;mrow&gt;&lt;mi&gt;r&lt;/mi&gt;&lt;mo&gt;(&lt;/mo&gt;&lt;mi&gt;x&lt;/mi&gt;&lt;mo&gt;)&lt;/mo&gt;&lt;mo&gt;=&lt;/mo&gt;&lt;mn&gt;1&lt;/mn&gt;&lt;/mrow&gt;&lt;/math&gt;&lt;/span&gt; except in the barrier region &lt;span&gt;&lt;math&gt;&lt;mrow&gt;&lt;mo&gt;[&lt;/mo&gt;&lt;msub&gt;&lt;mi&gt;x&lt;/mi&gt;&lt;mn&gt;0&lt;/mn&gt;&lt;/msub&gt;&lt;mo&gt;,&lt;/mo&gt;&lt;msub&gt;&lt;mi&gt;x&lt;/mi&gt;&lt;mn&gt;0&lt;/mn&gt;&lt;/msub&gt;&lt;mo&gt;+&lt;/mo&gt;&lt;mi&gt;l&lt;/mi&gt;&lt;mo&gt;]&lt;/mo&gt;&lt;/mrow&gt;&lt;/math&gt;&lt;/span&gt;, in which &lt;em&gt;r&lt;/em&gt;(&lt;em&gt;x&lt;/em&gt;) becomes negative away from its boundary, representing the biological assumption that the environment becomes hostile to the species inside the barrier. A parameter &lt;em&gt;α&lt;/em&gt; &gt; 0 in the expression of &lt;em&gt;r&lt;/em&gt;(&lt;em&gt;x&lt;/em&gt;) is used to characterize the severity of the environmental hostility. We find that when all the other parameters are fixed there exists a critical value &lt;em&gt;l&lt;/em&gt;* of the barrier length &lt;em&gt;l&lt;/em&gt; such that successful spreading is continued past the barrier region when &lt;em&gt;l&lt;/em&gt; &lt; &lt;em&gt;l&lt;/em&gt;*, and the propagation is blocked when &lt;em&gt;l&lt;/em&gt; &gt; &lt;em&gt;l&lt;/em&gt;*. Similarly we show numerically that when all the other parameters are fixed, there is a critical value &lt;em&gt;α&lt;/em&gt;* of the barrier severity &lt;em&gt;α&lt;/em&gt; such that propagation can be continued when &lt;em&gt;α&lt;/em&gt; &lt; &lt;em&gt;α&lt;/em&gt;*, but it is blocked when &lt;em&gt;α&lt;/em&gt; &gt; &lt;em&gt;α&lt;/em&gt;*. The dependence of &lt;em&gt;l&lt;/em&gt;* (respectively &lt;em&gt;α&lt;/em&gt;*) on the other parameters are also analysed.&lt;/div&gt;&lt;div&gt;To include temporal fluctuations of the environment, we further replace &lt;em&gt;r&lt;/em&gt;(&lt;em&gt;x&lt;/em&gt;) by &lt;em&gt;a&lt;/em&gt;(&lt;em&gt;t&lt;/em&gt;)&lt;em&gt;r&lt;/em&gt;(&lt;em&gt;x&lt;/em&gt;) with &lt;em&gt;a&lt;/em&gt;(&lt;em&gt;t&lt;/em&gt;) a positive time-periodic function of average 1, to represent the periodic modulation of the environment. Our numerical simulations suggest that increasing the magnitude of temporal variation enhances the ability of species invasion, while increasing the frequency of such variation reduces this ability.&lt;/div&gt;&lt;div&gt;To see how Allee effect may influence the invasion with a barrier, our results based on a bistable &lt;em&gt;f&lt;/em&gt; discussed above are compared with that for a model obtained from a standard monostable function (no Allee effect), namely &lt;span&gt;&lt;math&gt;&lt;mrow&gt;&lt;mi&gt;f&lt;/mi&gt;&lt;mo&gt;=&lt;/mo&gt;&lt;mi&gt;u&lt;/mi&gt;&lt;mo&gt;[&lt;/mo&gt;&lt;mi&gt;r&lt;/mi&gt;&lt;mo&gt;(&lt;/mo&gt;&lt;mi&gt;x&lt;/mi&gt;&lt;mo&gt;)&lt;/mo&gt;&lt;mo&gt;−&lt;/mo&gt;&lt;mi&gt;u&lt;/mi&gt;&lt;mo&gt;]&lt;/mo&gt;&lt;/mrow&gt;&lt;/math&gt;&lt;/span&gt; with the same &lt;em&gt;r&lt;/em&gt;(&lt;em&gt;x&lt;/em&gt;). A parallel numerical analysis shows that qualitatively everything is the same in the monostable case, including the numerical results incorporating seasonal changes (w","PeriodicalId":51119,"journal":{"name":"Mathematical Biosciences","volume":"394 ","pages":"Article 109624"},"PeriodicalIF":1.8,"publicationDate":"2026-01-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146044540","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Adaptive foraging under stoichiometric constraints can reshape competitive outcomes 化学计量约束下的适应性觅食可以重塑竞争结果。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-22 DOI: 10.1016/j.mbs.2026.109625
Oluwagbemisola Oladepo , Angela Peace
Competition for resources is a central concept in ecology that is traditionally constrained by the Competitive Exclusion Principle, which states that n consumers cannot stably coexist on fewer than n resources. However, studies have shown that incorporating ecological stoichiometry (linking organisms’ growth and survival to nutrient ratios of elements like carbon, nitrogen, and phosphorus) into competition models with two consumers feeding on a single resource reveals that nutrient composition, not just quantity, can determine competitive outcomes, potentially allowing stable coexistence regions. Building on these foundations, this study extends stoichiometric competition models to include adaptive foraging, where consumer feeding effort dynamically responds to resource quality. Two frameworks were analyzed: a base model with fixed feeding effort for both consumers and an adaptive model where the initially disadvantaged competitor’s feeding effort evolves over time. Analytical and numerical results demonstrate that adaptive foraging can expand conditions for persistence, enable coexistence, and even reverse dominance hierarchies by allowing inferior consumers to compensate for nutrient or efficiency disadvantages. However, these benefits decline under extreme enrichment, where prey nutrient quality deteriorates beyond compensation limits. Additionally, the speed of adaptation influences competitive outcome, as the initially disadvantaged consumer must adapt fast enough to see the benefit of adaptation. Overall, the study shows that adaptive foraging under stoichiometric constraints fundamentally reshapes ecological competition, highlighting the interplay between nutrient dynamics, behavioral plasticity, and adaptation in maintaining biodiversity.
资源竞争是生态学中的一个核心概念,传统上受到竞争排斥原则的约束,该原则指出n个消费者不能在少于n个资源上稳定共存。然而,研究表明,将生态化学计量学(将生物体的生长和生存与碳、氮和磷等元素的营养比例联系起来)纳入两个消费者以单一资源为食的竞争模型中,表明营养成分,而不仅仅是数量,可以决定竞争结果,可能允许稳定的共存区域。在此基础上,本研究扩展了化学计量竞争模型,包括适应性觅食,其中消费者的喂养努力动态响应资源质量。我们分析了两种框架:一种是对消费者双方的喂食努力都是固定的基础模型,另一种是适应模型,其中最初处于劣势的竞争对手的喂食努力会随着时间的推移而变化。分析和数值结果表明,适应性觅食可以扩大生存条件,实现共存,甚至通过允许劣势消费者补偿营养或效率劣势来逆转优势等级。然而,在极度富集的情况下,这些益处下降,猎物的营养质量恶化超过了补偿限度。此外,适应的速度影响竞争结果,因为最初处于不利地位的消费者必须适应得足够快,才能看到适应的好处。总体而言,该研究表明,在化学计量学约束下的适应性觅食从根本上重塑了生态竞争,突出了营养动态、行为可塑性和适应在维持生物多样性方面的相互作用。
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引用次数: 0
Impulsive stem cell transplantation to modulate psoriasis: Insights of complex cytokine network 脉冲干细胞移植调节牛皮癣:复杂细胞因子网络的见解。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-18 DOI: 10.1016/j.mbs.2026.109623
Subhankar Kushary , Tushar Ghosh , Priti Kumar Roy
Psoriasis is caused by abnormal interactions between immune cells, cytokines, and keratinocytes. In this study, we develop a dynamical model that includes epidermal stem-cell differentiation, activated T cells, activated dendritic cells, keratinocytes, and a selected cytokine network (TNF, TGF-β, IL-23, IL-17, IL-10). The model considers two-way interactions between cytokines and cells, and the quasi-steady-state approximation is applied to reduce complexity. We determine the invariant region that ensures bounded solutions and analyze the local stability of the interior equilibrium. Sensitivity analysis shows key parameters that strongly influence keratinocyte growth. Hopf bifurcation analysis with respect to TNF-driven keratinocyte up-regulation (ζ3) and IL-10 production by stem cells (p7) reveals that higher ζ3 or lower p7 induce oscillatory, flare-like dynamics, while stronger IL-10 feedback stabilizes the system. Numerical simulations test therapeutic strategies, including TNF inhibition and stem cell infusion, modeled with impulsive control. The mathematical results show conditions under which impulsive periodic orbits become stable. Simulations indicate that TNF inhibition gives only temporary benefit, whereas stem cell infusion provides sustained control of immune activation and keratinocyte overgrowth. Overall, the study highlights the importance of cytokine balance and supports stem cell therapy as a promising approach for restoring immune-epidermal homeostasis in psoriasis.
牛皮癣是由免疫细胞、细胞因子和角质形成细胞之间的异常相互作用引起的。在这项研究中,我们建立了一个动力学模型,包括表皮干细胞分化、活化的T细胞、活化的树突状细胞、角质形成细胞和选定的细胞因子网络(TNF、TGF-β、IL-23、IL-17、IL-10)。该模型考虑细胞因子和细胞之间的双向相互作用,并采用准稳态近似来降低复杂性。我们确定了保证有界解的不变区域,并分析了内部平衡的局部稳定性。敏感性分析显示了强烈影响角质细胞生长的关键参数。关于tnf驱动的角质形成细胞上调(β - 3)和干细胞产生IL-10 (β - 7)的Hopf分岔分析表明,较高的β - 3或较低的β - 7诱导振荡,耀斑样动力学,而较强的IL-10反馈稳定了系统。数值模拟测试治疗策略,包括TNF抑制和干细胞输注,以脉冲控制为模型。数学结果显示了脉冲周期轨道稳定的条件。模拟表明,TNF抑制仅提供暂时的益处,而干细胞输注可持续控制免疫激活和角化细胞过度生长。总的来说,该研究强调了细胞因子平衡的重要性,并支持干细胞治疗作为恢复牛皮癣免疫-表皮稳态的有希望的方法。
{"title":"Impulsive stem cell transplantation to modulate psoriasis: Insights of complex cytokine network","authors":"Subhankar Kushary ,&nbsp;Tushar Ghosh ,&nbsp;Priti Kumar Roy","doi":"10.1016/j.mbs.2026.109623","DOIUrl":"10.1016/j.mbs.2026.109623","url":null,"abstract":"<div><div>Psoriasis is caused by abnormal interactions between immune cells, cytokines, and keratinocytes. In this study, we develop a dynamical model that includes epidermal stem-cell differentiation, activated T cells, activated dendritic cells, keratinocytes, and a selected cytokine network (TNF, TGF-<em>β</em>, IL-23, IL-17, IL-10). The model considers two-way interactions between cytokines and cells, and the quasi-steady-state approximation is applied to reduce complexity. We determine the invariant region that ensures bounded solutions and analyze the local stability of the interior equilibrium. Sensitivity analysis shows key parameters that strongly influence keratinocyte growth. Hopf bifurcation analysis with respect to TNF-driven keratinocyte up-regulation (<em>ζ</em><sub>3</sub>) and IL-10 production by stem cells (<em>p</em><sub>7</sub>) reveals that higher <em>ζ</em><sub>3</sub> or lower <em>p</em><sub>7</sub> induce oscillatory, flare-like dynamics, while stronger IL-10 feedback stabilizes the system. Numerical simulations test therapeutic strategies, including TNF inhibition and stem cell infusion, modeled with impulsive control. The mathematical results show conditions under which impulsive periodic orbits become stable. Simulations indicate that TNF inhibition gives only temporary benefit, whereas stem cell infusion provides sustained control of immune activation and keratinocyte overgrowth. Overall, the study highlights the importance of cytokine balance and supports stem cell therapy as a promising approach for restoring immune-epidermal homeostasis in psoriasis.</div></div>","PeriodicalId":51119,"journal":{"name":"Mathematical Biosciences","volume":"394 ","pages":"Article 109623"},"PeriodicalIF":1.8,"publicationDate":"2026-01-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146014060","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A discrete nonlinear model for HPV immune suppression and evasion HPV免疫抑制和逃避的离散非线性模型。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-11 DOI: 10.1016/j.mbs.2026.109622
Francisco J. Solis , Luz M. Gonzalez
In this paper we present a nonlinear discrete model in order to describe defective interactions of immune system cells with Human Papillomavirus (HPV) infected cells. Statistics show than only a percentage of the HPV infected population will develop malignancy diseases. Our goal is to develop a prototypical mathematical model that is analitically tratable with a statistical complexity to reproduce qualitative and quantitative information of the consequences of HPV-evasion of host defenses and suppression of an efficient immune response. Numerical results obtained from the model confirm the intrinsic relationships of its nonlinear terms representing the earlier evolution of mature infected cells with a successful virus invasion.
在本文中,我们提出了一个非线性离散模型,以描述免疫系统细胞与人乳头瘤病毒(HPV)感染细胞的缺陷相互作用。统计数据显示,只有百分之一的HPV感染人群会发展成恶性疾病。我们的目标是开发一个典型的数学模型,该模型具有统计复杂性,可以进行分析,以再现hpv逃避宿主防御和抑制有效免疫反应的后果的定性和定量信息。该模型的数值结果证实了其非线性项的内在关系,这些非线性项代表了成熟感染细胞在病毒成功入侵后的早期进化。
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引用次数: 0
Identification of significant SNPs and the quantification of correlation using genomic informational field theory (GIFT) 利用基因组信息场理论(GIFT)鉴定显著snp和量化相关性。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-10 DOI: 10.1016/j.mbs.2025.109606
Scott Gadsby , Cyril Rauch , Jonathan A D Wattis
Given data on genotypes and phenotypes from a sample population, we show how ordering the data by phenotype and analysing the information contained in the corresponding list of genotypes can identify those SNPs which have a significant correlation with phenotype. We derive formulae for p-values to quantify the significance of each SNP, and show how to analyse the correlations between different SNPs. As well as using classical covariance and correlations, we introduce an information-theoretic measure of correlation which is based on Shannon’s informational entropy. This variational formulation also gives rise to other ways of determining the strength of a SNP’s influence on phenotype in a biallelic population using ‘field’ functions which account for the relationship between phenotype and genotype. By computing this field for each SNP, we are able to quantify the correlations between SNPs. The results are shown to depend on the number of each genostate (aa, Aa and AA) in the population in a predictable manner. The methods are illustrated using data on horse height.
给定来自样本群体的基因型和表型数据,我们展示了如何按表型排序数据并分析相应基因型列表中包含的信息,从而识别出与表型有显著相关性的snp。我们推导了p值公式来量化每个SNP的重要性,并展示了如何分析不同SNP之间的相关性。在使用经典协方差和相关性的基础上,引入了一种基于香农信息熵的相关度信息度量。这种变分公式还产生了其他方法来确定SNP对双等位基因群体中表型的影响强度,使用“场”函数来解释表型和基因型之间的关系。通过计算每个SNP的这个字段,我们能够量化SNP之间的相关性。结果显示,以可预测的方式依赖于群体中每种基因状态(aa, aa和aa)的数量。用马的身高数据说明了这些方法。
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引用次数: 0
Modeling vaccine failures and behavioral change: Effects on disease transmission dynamics and thresholds 模拟疫苗失效和行为改变:对疾病传播动力学和阈值的影响。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-07 DOI: 10.1016/j.mbs.2026.109619
Irasema Pedroza-Meza , M. Adrian Acuña-Zegarra , Jorge X. Velasco-Hernández
Vaccination is a cornerstone of infectious disease control, yet vaccines are not fully protective, leaving a fraction of the vaccinated population susceptible to infection. This partial protection can alter behavior, as individuals who perceive themselves as immune may reduce adherence to preventive measures. Motivated by this, we investigate how behavioral changes among non-immune vaccinated individuals influence the dynamics of a directly transmitted disease and the basic reproduction number. We propose a model that incorporates vaccine failure through three facets (take, degree, and duration) alongside a behavioral parameter that modifies contact rates according to compliance with mitigation measures.
Our analysis highlights the critical role of the behavioral index in key phenomena, including backward bifurcation and overall disease dynamics. We identify two thresholds. The first specifies the values of the behavioral index for which backward bifurcation does not arise, thereby indicating the conditions under which the disease may persist. The second establishes a relationship between the behavioral index and vaccine efficacy, which allows us to compare the transmission dynamics of our model with those of the classical vaccination model.
疫苗接种是传染病控制的基石,但疫苗并不具有完全的保护作用,使接种疫苗的一小部分人易受感染。这种部分保护可以改变行为,因为认为自己免疫的个人可能会减少对预防措施的坚持。基于此,我们研究了非免疫接种个体的行为变化如何影响直接传播疾病的动态和基本繁殖数。我们提出了一个模型,该模型通过三个方面(剂量、程度和持续时间)结合疫苗失败,以及一个行为参数,该参数根据缓解措施的依从性修改接触率。我们的分析强调了行为指数在关键现象中的关键作用,包括后向分岔和整体疾病动态。我们确定了两个阈值。第一项规定了不会出现后向分岔的行为指数的值,从而表明疾病可能持续存在的条件。第二个模型建立了行为指数与疫苗功效之间的关系,这使我们能够将我们的模型与经典疫苗接种模型的传播动力学进行比较。
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引用次数: 0
Dynamics of a tick-borne disease transmission model with acquired tick resistance 具有获得性蜱虫抗性的蜱传疾病传播模型动力学。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-07 DOI: 10.1016/j.mbs.2026.109618
Junfang Cheng, Xue Zhang
Tick-borne diseases pose a potential threat to public health, and mathematical models have been developed and used to analyze the spread mechanisms of tick-borne diseases. An important host behavior, acquired tick resistance (ATR), to defend against tick infestation, has not yet been modeled and qualitatively analyzed. This paper proposes a model of tick-borne disease transmission incorporating ATR, where hosts are categorized into subgroups based on their infection status and tick bite counts. For the tick-host population model, we derive four distribution patterns of the host subpopulations and analyze the global asymptotic stability of the positive equilibrium. For the disease transmission model, we calculate the basic reproduction number and prove the global asymptotic stability of both the disease-free equilibrium and the endemic equilibrium. Numerical simulations illustrate that the emergence of ATR effectively reduces the number of infected hosts, while an increase in the co-feeding transmission probability leads to a rise in the number of infected ticks.
蜱传疾病对公众健康构成潜在威胁,人们建立了数学模型来分析蜱传疾病的传播机制。获得性蜱虫抗性(ATR)是宿主抵御蜱虫侵害的一种重要行为,目前尚未建立模型并进行定性分析。本文提出了一种结合ATR的蜱传疾病传播模型,其中宿主根据其感染状态和蜱叮咬计数被分类为亚组。对于蜱-宿主种群模型,我们导出了宿主亚种群的四种分布模式,并分析了正平衡的全局渐近稳定性。对于疾病传播模型,我们计算了基本繁殖数,并证明了无病平衡和地方病平衡的全局渐近稳定性。数值模拟表明,ATR的出现有效地减少了感染宿主的数量,而共食传播概率的增加导致感染蜱的数量增加。
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引用次数: 0
Predator-prey dynamics with personality-dependent foraging and maturation delay: stability switches, Hopf and Bogdanov-Takens bifurcations 具有人格依赖觅食和成熟延迟的捕食者-猎物动力学:稳定性开关,Hopf和Bogdanov-Takens分岔
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-07 DOI: 10.1016/j.mbs.2025.109609
Heping Jiang , Shan Gao , Hao Wang
Individual differences in predator boldness can alter encounter and attack rates, while maturation introduces biologically realistic time lags. We couple these two mechanisms in a Rosenzweig-MacArthur framework by modeling a nonlinear, personality-dependent attack rate and deriving a stage-structured maturation delay for predators, yielding a delay differential equation system. For the delay-free model, we establish positivity and boundedness, characterize boundary and interior equilibria, and provide a complete local bifurcation picture: transcritical and saddle-node bifurcations together with Hopf bifurcations that generate stable cycles; at codimension two, we prove the occurrence of cusp/Bogdanov-Takens points with accompanying homoclinic loops. Introducing maturation delay produces delay-induced complexity: multiple stability switches, sequences of Hopf bifurcations on distinct frequency branches, and global Hopf continua that connect critical delays. Analytical predictions are corroborated numerically via continuation (DDE-BIFTOOL), revealing periodic and quasi-periodic oscillations as well as bistability between coexistence and boundary states. Our results identify personality heterogeneity and developmental timing as interacting drivers of oscillatory and multistable dynamics, and provide parameter thresholds, expressed in biologically interpretable combinations, for when coexistence equilibria lose or regain stability. These findings refine theory for delayed predator-prey interactions and suggest targets (e.g., handling/harvest and juvenile survival) for stabilizing management in systems with behavioral variation.
捕食者大胆程度的个体差异会改变遭遇和攻击率,而成熟则会引入生物学上现实的时间滞后。我们在Rosenzweig-MacArthur框架中将这两种机制结合起来,通过建模一个非线性的、人格依赖的攻击率,并推导出捕食者的阶段结构的成熟延迟,从而得到一个延迟微分方程系统。对于无延迟模型,我们建立了正性和有界性,刻画了边界平衡点和内部平衡点,并给出了一个完整的局部分岔图:跨临界分岔和鞍节点分岔以及Hopf分岔产生稳定循环;在余维2处,我们证明了伴随同斜环的cusp/Bogdanov-Takens点的存在性。引入成熟延迟会产生延迟诱导的复杂性:多个稳定性开关,不同频率分支上的Hopf分岔序列,以及连接临界延迟的全局Hopf连续。分析预测通过延拓(DDE-BIFTOOL)得到数值证实,揭示了周期和准周期振荡以及共存状态和边界状态之间的双稳态。我们的研究结果确定了人格异质性和发育时间是振荡和多稳定动力学的相互作用驱动因素,并提供了参数阈值,以生物学上可解释的组合表达,用于共存平衡何时失去或恢复稳定。这些发现完善了延迟捕食者-猎物相互作用的理论,并提出了在行为变异系统中稳定管理的目标(例如,处理/收获和幼鱼生存)。
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引用次数: 0
Stability analysis of a time-delayed SIQR epidemic model with nonlinear transmission and control parameters 具有非线性传递和控制参数的时滞SIQR流行病模型的稳定性分析。
IF 1.8 4区 数学 Q2 BIOLOGY Pub Date : 2026-01-02 DOI: 10.1016/j.mbs.2025.109608
Kaijiao Huang , Lifei Wang , Faisal Mehmood
We introduce an SIQR epidemic model that integrates nonlinear transmission and two discrete time delays corresponding to incubation and treatment durations. The model seeks to encapsulate essential dynamical characteristics of epidemic advancement while being suitable for thorough stability examination. The local asymptotic stability of the disease-free and endemic equilibria is examined by Lyapunov-Krasovskii functionals and delay-dependent linear matrix inequalities (LMIs), which mitigate conservatism in the established stability constraints compared to time-invariant criteria. In the absence of delays, we obtain the classical Routh-Hurwitz criteria for local stability, and for positive delays, we formulate characteristic equations whose roots are examined to identify Hopf bifurcations. Transversality requirements are checked to ensure the presence of Hopf bifurcations and to determine key delay thresholds beyond which persistent oscillations form. We propose a delay-dependent feedback control rule that adaptively modifies transmission and quarantine rates; necessary conditions for stability under this control are provided in LMI form and converted into explicit, interpretable constraints on permissible delays and minimum control intensity. The model is augmented to incorporate basic demographic turnover and multi-stage infection delays to provide subgroup-specific treatment representations. Numerical simulations and bifurcation diagrams demonstrate and validate the theoretical findings, indicating how augmented delays or intensified nonlinear transmission can alter stability thresholds and provoke recurring outbreaks. Our findings quantify (i) essential delay durations that undermine stability and (ii) the control effort necessary to reestablish equilibrium, results that can be articulated as definitive decision thresholds for conversion into policy-relevant outputs.
我们引入了一个SIQR流行病模型,该模型集成了非线性传播和两个离散时间延迟,对应于潜伏期和治疗持续时间。该模型试图概括流行病发展的基本动力学特征,同时适合于彻底的稳定性检验。利用Lyapunov-Krasovskii泛函和延迟相关线性矩阵不等式(lmi)检验了无病平衡点和地方性平衡点的局部渐近稳定性,与定常准则相比,它们减轻了所建立的稳定性约束的保守性。在没有时滞的情况下,我们得到了局部稳定的经典Routh-Hurwitz准则;对于正时滞,我们给出了特征方程,并对其根进行了检验以识别Hopf分岔。检查横向性要求以确保Hopf分岔的存在,并确定超过持续振荡形成的关键延迟阈值。我们提出了一个延迟相关的反馈控制规则,自适应地修改传播率和隔离率;在此控制下,稳定性的必要条件以LMI形式提供,并转化为对允许延迟和最小控制强度的明确的、可解释的约束。该模型得到了扩展,纳入了基本的人口更替和多阶段感染延迟,以提供针对亚组的治疗代表。数值模拟和分岔图证明并验证了理论发现,表明延迟增加或非线性传播加剧如何改变稳定性阈值并引发反复爆发。我们的研究结果量化了(i)破坏稳定的必要延迟持续时间和(ii)重建平衡所需的控制努力,这些结果可以作为明确的决策阈值,转化为与政策相关的产出。
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Mathematical Biosciences
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