Physical Review E最新文献_第4页

Finding patient zero in susceptible-infectious-susceptible epidemic processes. 在易感-传染-易感流行病过程中寻找病人零点。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044308

Robin Persoons, Piet Van Mieghem

引用次数: 0

Multiphase field model of cells on a substrate: From three dimensional to two dimensional. 基底上细胞的多相场模型：从三维到二维

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044403

Michael Chiang, Austin Hopkins, Benjamin Loewe, Davide Marenduzzo, M Cristina Marchetti

引用次数: 0

Bayan algorithm: Detecting communities in networks through exact and approximate optimization of modularity. Bayan 算法：通过精确和近似优化模块化检测网络中的群落。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044315

Samin Aref, Mahdi Mostajabdaveh, Hriday Chheda

{"title":"Bayan algorithm: Detecting communities in networks through exact and approximate optimization of modularity.","authors":"Samin Aref, Mahdi Mostajabdaveh, Hriday Chheda","doi":"10.1103/PhysRevE.110.044315","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044315","url":null,"abstract":"Community detection is a classic network problem with extensive applications in various fields. Its most common method is using modularity maximization heuristics which rarely return an optimal partition or anything similar. Partitions with globally optimal modularity are difficult to compute, and therefore have been underexplored. Using structurally diverse networks, we compare 30 community detection methods including our proposed algorithm that offers optimality and approximation guarantees: the Bayan algorithm. Unlike existing methods, Bayan globally maximizes modularity or approximates it within a factor. Our results show the distinctive accuracy and stability of maximum-modularity partitions in retrieving planted partitions at rates higher than most alternatives for a wide range of parameter settings in two standard benchmarks. Compared to the partitions from 29 other algorithms, maximum-modularity partitions have the best medians for description length, coverage, performance, average conductance, and well clusteredness. These advantages come at the cost of additional computations which Bayan makes possible for small networks (networks that have up to 3000 edges in their largest connected component). Bayan is several times faster than using open-source and commercial solvers for modularity maximization, making it capable of finding optimal partitions for instances that cannot be optimized by any other existing method. Our results point to a few well-performing algorithms, among which Bayan stands out as the most reliable method for small networks. A python implementation of the Bayan algorithm (bayanpy) is publicly available through the package installer for python.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044315"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677338","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Modeling urbanization dynamics by labor force migration. 通过劳动力迁移模拟城市化动态。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044314

Hirotaka Goto

{"title":"Modeling urbanization dynamics by labor force migration.","authors":"Hirotaka Goto","doi":"10.1103/PhysRevE.110.044314","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044314","url":null,"abstract":"Individual participants in human society collectively exhibit aggregation behavior. In this study, we present a simple microscopic model of labor force migration based on the active Brownian particles framework. In particular, agent-based simulations show that the model produces clusters of agents from a random initial distribution. Furthermore, two empirical regularities called Zipf's and Okun's laws were observed. To reveal the mechanism underlying the reproduced aggregation phenomena, we use our microscopic model to derive an extended Keller-Segel system, which is a classic model describing the aggregation behavior of biological organisms called taxis. The obtained macroscopic system indicates that the concentration of the workforce in the real world can be explained through a new type of taxis central to human behavior, highlighting the relevance of urbanization to blow-up phenomena in the derived PDE system. We then characterize the transition between the aggregation and diffusion regimes both analytically and computationally. The predicted long-term dynamics of urbanization-originating in the asymmetric natures of employed and unemployed agents-are compared with global empirical data, particularly in the realms of labor statistics and urban indicators.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044314"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677476","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Predicting protracted binding kinetics of polymers: Integral of first-passage times. 预测聚合物的持久结合动力学：首次通过时间积分

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044502

Qiyun Tang, Yifan Huang, Marcus Müller

{"title":"Predicting protracted binding kinetics of polymers: Integral of first-passage times.","authors":"Qiyun Tang, Yifan Huang, Marcus Müller","doi":"10.1103/PhysRevE.110.044502","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044502","url":null,"abstract":"Capturing protracted binding kinetics of polymers onto the surface of nanoobjects is crucial for the rational design of multifunctional nanostructures, such as patchy nanoparticles and nanodrug carriers. Recently, we developed a method-integral of first-passage times (IFS)-to successfully predict nonequilibrium, kinetically stable superstructures fabricated by two star polymers. However, whether the protracted binding kinetics predicted by IFS corresponds to the actual polymer adsorption has only been incompletely explored. In this paper, we clarify this issue by using IFS to study polymer adsorption with binding ends onto a planar wall as an example. At low free-energy barriers, the IFS-predicted polymer binding kinetics is consistent with those extracted from direct simulations. At high free-energy barriers, the protracted polymer adsorption predicted by IFS coincides with those measured in experiments. Our findings demonstrate the feasibility of IFS to study long-lived formation kinetics of polymer nanostructures by spanning timescales from picoseconds to macroscopic minutes, which establishes a foundation to use IFS in different applications.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044502"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677599","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Self-organized transport in noisy dynamic networks. 噪声动态网络中的自组织传输。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044310

Frederic Folz, Kurt Mehlhorn, Giovanna Morigi

引用次数: 0

Tipping in Stuart-Landau oscillators induced by higher-order repulsive interactions. 由高阶斥力相互作用诱发的斯图尔特-朗道振荡器中的倾覆。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044211

Umesh Kumar Verma, Subhasanket Dutta, Richita Ghosh, Manish Dev Shrimali, Sarika Jalan

引用次数: 0

Statistical physics and dynamical systems perspectives on geophysical extreme events. 从统计物理学和动力学系统的角度看地球物理极端事件。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.041001

D Faranda, G Messori, T Alberti, C Alvarez-Castro, T Caby, L Cavicchia, E Coppola, R V Donner, B Dubrulle, V M Galfi, E Holmberg, V Lembo, R Noyelle, P Yiou, B Spagnolo, D Valenti, S Vaienti, C Wormell

{"title":"Statistical physics and dynamical systems perspectives on geophysical extreme events.","authors":"D Faranda, G Messori, T Alberti, C Alvarez-Castro, T Caby, L Cavicchia, E Coppola, R V Donner, B Dubrulle, V M Galfi, E Holmberg, V Lembo, R Noyelle, P Yiou, B Spagnolo, D Valenti, S Vaienti, C Wormell","doi":"10.1103/PhysRevE.110.041001","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.041001","url":null,"abstract":"Statistical physics and dynamical systems theory are key tools to study high-impact geophysical events such as temperature extremes, cyclones, thunderstorms, geomagnetic storms, and many others. Despite the intrinsic differences between these events, they all originate as temporary deviations from the typical trajectories of a geophysical system, resulting in well-organized, coherent structures at characteristic spatial and temporal scales. While statistical extreme value analysis techniques are capable of providing return times and probabilities of occurrence of certain geophysical events, they are not apt to account for their underlying physics. Their focus is to compute the probability of occurrence of events that are large or small with respect to some specific observable (e.g., temperature, precipitation, solar wind), rather than to relate rare or extreme phenomena to the underlying anomalous geophysical regimes. This paper outlines this knowledge gap, presenting some related challenges, new formalisms and briefly commenting on how stochastic approaches tailored to the study of extreme geophysical events can help to advance their understanding.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"041001"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677613","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Complex network-based multistep forecasting model for hyperchaotic time series. 基于复杂网络的超混沌时间序列多步骤预测模型。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044302

Reshmi L B, Drisya Alex Thumba, K Asokan, T K Manoj Kumar, T R Ramamohan, K Satheesh Kumar

{"title":"Complex network-based multistep forecasting model for hyperchaotic time series.","authors":"Reshmi L B, Drisya Alex Thumba, K Asokan, T K Manoj Kumar, T R Ramamohan, K Satheesh Kumar","doi":"10.1103/PhysRevE.110.044302","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044302","url":null,"abstract":"We present a method for predicting hyperchaotic time series using a complex network-based forecasting model. We first construct a network from a given time series, which serves as a coarse-grained representation of the underlying attractor. This network facilitates multistep forecasting by capturing the local nonlinearity of the dynamics and offers superior accuracy over more extended periods than traditional methods. The network is formed by converting the patterns of local oscillations into sequences of numerical symbols, which are then used to create nodes and edges in a network, capturing the system's dynamical behavior at a reduced resolution. The network allows predictions up to several steps ahead without the exponential error increase usually associated with linear first-order methods. The improved predictions result from the unique ability of the network to collect identical pattern transitions in the orbit dynamics into a system of neighborhoods in the network. The effectiveness of this approach is demonstrated through its application to several high-dimensional hyperchaotic systems, where it outperforms both the linear first-order and other network-based methods in terms of prediction accuracy and horizon. Besides enhancing the predictability of chaotic systems, this methodology also outlines a procedure to develop a discrete model flow within an attractor.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044302"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677346","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Network modulation at stable states. 稳定状态下的网络调制。

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2024-10-01 DOI: 10.1103/PhysRevE.110.044407

Ben Collins, Jason Shulman, Ethan Speakman, Hailey Martin, Jennifer Reiss, Jennifer Myers, Gregg Roman, Gemunu H Gunaratne

{"title":"Network modulation at stable states.","authors":"Ben Collins, Jason Shulman, Ethan Speakman, Hailey Martin, Jennifer Reiss, Jennifer Myers, Gregg Roman, Gemunu H Gunaratne","doi":"10.1103/PhysRevE.110.044407","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044407","url":null,"abstract":"Advances in microarray and sequencing technologies have made possible the interrogation of biological processes at increasing levels of complexity. The underlying biomolecular networks contain large numbers of nodes, yet interactions within the networks are not known precisely. In the absence of accurate models, one may inquire if it is possible to find relationships between the states of such networks under external changes, and in particular, if such relationships can be model-independent. In this paper we introduce a class of such relationships. The results are based on the observation that changes to the equilibrium state of a network due to an alteration in an external input are \"small\" compared to the change in the input, a phenomenon we refer to as network modulation. It relies on the stability of the state. One consequence of network modulation is that response surfaces containing expression profiles of different mutants of an organism are low-dimensional linear subspaces. As an example, the expression profile of a double-knockout mutant generally lies close to the plane defined by the expression profiles of the wild-type and those of the two single-knockout mutants. This assertion is validated using experimental data from the sleep-deprivation network of Drosophila and the oxygen-deprivation network of Escherichia coli. The linearity of response surfaces is crucial in the design of a feedback control algorithm to move the underlying network from an initial state to a prespecified target state.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044407"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677424","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0