Physical review. E最新文献_第10页

Drift-diffusive resetting search process with stochastic returns: Speedup beyond optimal instantaneous return.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014142

Arup Biswas, Ashutosh Dubey, Anupam Kundu, Arnab Pal

{"title":"Drift-diffusive resetting search process with stochastic returns: Speedup beyond optimal instantaneous return.","authors":"Arup Biswas, Ashutosh Dubey, Anupam Kundu, Arnab Pal","doi":"10.1103/PhysRevE.111.014142","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.014142","url":null,"abstract":"Stochastic resetting has recently emerged as a proficient strategy to reduce the completion time for a broad class of first-passage processes. In the canonical setup, one intermittently resets a given system to its initial configuration only to start afresh and continue evolving in time until the target goal is met. This is, however, an instantaneous process and thus less feasible for any practical purposes. A crucial generalization in this regard is to consider a finite-time return process which has significant ramifications to the firstpassage properties. Intriguingly, it has recently been shown that for diffusive search processes, returning in finite but stochastic time can gain significant speedup over the instantaneous resetting process. Unlike diffusion which has a diverging mean completion time, in this paper, we ask whether this phenomena can also be observed for a first-passage process with finite mean completion time. To this end, we explore the setup of a classical drift-diffusive search process in one dimension with stochastic resetting and further assume that the return phase is modulated by a potential U(x)=λ|x| with λ>0. For this process, we compute the mean first-passage time exactly and underpin its characteristics with respect to the resetting rate and potential strength. We find a unified phase space that allows us to explore and identify the system parameter regions where stochastic return supersedes over both the underlying process and the process under instantaneous resetting. Furthermore and quite interestingly, we find that for a range of parameters the mean completion time under stochastic return protocol can be reduced further than the optimally restarted instantaneous processes. We thus believe that resetting with stochastic returns can serve as a better optimization strategy owing to its dominance over classical first passage under resetting.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-1","pages":"014142"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143459243","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

Multiparticle collision framework for active polar fluids.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.015416

Oleksandr Baziei, Benjamín Loewe, Tyler N Shendruk

{"title":"Multiparticle collision framework for active polar fluids.","authors":"Oleksandr Baziei, Benjamín Loewe, Tyler N Shendruk","doi":"10.1103/PhysRevE.111.015416","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.015416","url":null,"abstract":"Sufficiently dense intrinsically out-of-equilibrium suspensions, such as those observed in biological systems, can be modeled as active fluids characterized by their orientational symmetry. While mesoscale numerical approaches to active nematic fluids have been developed, polar fluids are simulated as either ensembles of microscopic self-propelled particles or continuous hydrodynamic-scale equations of motion. To better simulate active polar fluids in complex geometries or as a solvent for suspensions, mesoscale numerical approaches are needed. In this work, the coarse-graining multiparticle collision dynamics (MPCD) framework is applied to three active particle models to produce mesoscale simulations of polar active fluids. The first active-polar MPCD (AP-MPCD) is a variant of the Vicsek model, while the second and third variants allow the speed of the particles to relax towards a self-propulsion speed subject to Andersen and Langevin thermostats, respectively. Each of these AP-MPCD variants exhibits a flocking transition at a critical activity and banding in the vicinity of the transition point. We leverage the mesoscale nature of AP-MPCD to explore flocking in the presence of external fields, which destroys banding, and anisotropic obstacles, which act as a ratchet that biases the flocking direction. These results demonstrate the capacity of AP-MPCD to capture the known phenomenology of polar active suspensions and its versatility to study active polar fluids in complex scenarios.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-2","pages":"015416"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143459254","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

Numerical study of microorganisms swimming near a convex wall in a Giesekus fluid.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.015103

Chenlin Zhu, Fangyuan Peng, Dingyi Pan, Zhaosheng Yu, Zhaowu Lin

引用次数: 0

Exact distributions of threshold crossing times of proteins under post-transcriptional regulation by small RNAs.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014405

Syed Yunus Ali, Ashok Prasad, Dibyendu Das

{"title":"Exact distributions of threshold crossing times of proteins under post-transcriptional regulation by small RNAs.","authors":"Syed Yunus Ali, Ashok Prasad, Dibyendu Das","doi":"10.1103/PhysRevE.111.014405","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.014405","url":null,"abstract":"The timings of several cellular events like cell lysis, cell division, or pore formation in endosomes are regulated by the time taken for the relevant proteins to cross a threshold in number or concentration. Since protein synthesis is stochastic, the threshold crossing time is a first passage problem. The exact distributions of these first passage processes have been obtained recently for unregulated and autoregulated genes. Many proteins are however regulated by post-transcriptional regulation, controlled by small noncoding RNAs (sRNAs). Certain mathematical models of gene expression with post-transcriptional sRNA regulation have been recently exactly mapped to models without sRNA regulation. Utilizing this mapping and the exact distributions, we calculate exact results on fluctuations (full distribution, all cumulants, and characteristic times) of protein threshold crossing times in the presence of sRNA regulation. We derive two interesting predictions from these exact results. We show that the size of the fluctuation of the threshold crossing times have a nonmonotonic U-shaped behavior as a function of the rates of binding and unbinding of the sRNA-mRNA complex. Thus there are optimal parameters that minimize noise. Furthermore, the fluctuations in models with sRNA regulation may be higher or lower compared to the model without regulation, depending on the mean protein burst size.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-1","pages":"014405"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143458815","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

Exploring quantum ergodicity of unitary evolution through the Krylov approach.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014220

Gastón F Scialchi, Augusto J Roncaglia, Carlos Pineda, Diego A Wisniacki

引用次数: 0

Availability versus carrying capacity: Phases of asymmetric exclusion processes competing for finite pools of resources.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014154

Astik Haldar, Parna Roy, Erwin Frey, Abhik Basu

{"title":"Availability versus carrying capacity: Phases of asymmetric exclusion processes competing for finite pools of resources.","authors":"Astik Haldar, Parna Roy, Erwin Frey, Abhik Basu","doi":"10.1103/PhysRevE.111.014154","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.014154","url":null,"abstract":"We address how the interplay between the finite availability and carrying capacity of particles at different parts of a spatially extended system can control the steady-state currents and density profiles in the one-dimensional current-carrying lanes connecting the different parts of the system. To study this, we set up a minimal model consisting of two particle reservoirs of the same finite carrying capacity connected by two equally sized antiparallel totally asymmetric simple exclusion processes (TASEPs). We focus on the steady-state currents and particle density profiles in the two TASEP lanes. The ensuing phases and the phase diagrams, which can be remarkably complex, are parametrized by the model parameters defining particle exchange between the TASEP lanes and the reservoirs and the filling fraction of the particles that determine the total resources available. These parameters may be tuned to make the densities of the two TASEP lanes globally uniform or piece-wise continuous in the form of a combination of a single localized domain wall and a spatially constant density or a pair of delocalized domain walls. Our model reveals that the two reservoirs can be preferentially populated or depopulated in the steady states.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-1","pages":"014154"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143458951","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

Information geometry approach to quantum stochastic thermodynamics.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014133

Laetitia P Bettmann, John Goold

{"title":"Information geometry approach to quantum stochastic thermodynamics.","authors":"Laetitia P Bettmann, John Goold","doi":"10.1103/PhysRevE.111.014133","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.014133","url":null,"abstract":"Recent advancements have revealed new links between information geometry and classical stochastic thermodynamics, particularly through the Fisher information (FI) with respect to time. Recognizing the nonuniqueness of the quantum Fisher metric in Hilbert space, we exploit the fact that any quantum Fisher information (QFI) can be decomposed into a metric-independent incoherent part and a metric-dependent coherent contribution. We demonstrate that the incoherent component of any QFI can be directly linked to entropic acceleration, and for GKSL dynamics with local detailed balance, to the rate of change of generalized thermodynamic forces and entropic flow, paralleling the classical results. Furthermore, we tighten a classical uncertainty relation between the geometric uncertainty of a path in state space and the time-averaged rate of information change and demonstrate that it also holds for quantum systems. We generalize a classical geometric bound on the entropy rate for far-from-equilibrium processes by incorporating a nonnegative quantum contribution that arises from the geometric action due to coherent dynamics. Finally, we apply an information-geometric analysis to the recently proposed quantum-thermodynamic Mpemba effect, demonstrating this framework's ability to capture thermodynamic phenomena.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-1","pages":"014133"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143459003","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

Coexistence of loop and tree structures in transport networks.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014319

Luca Giaccone, Shashank Kumar Anand, Amilcare Porporato, Luca Ridolfi

引用次数: 0

Understanding pesticide-induced tipping in plant-pollinator networks across geographical scales: Prioritizing richness and modularity over nestedness.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014407

Arnab Chattopadhyay, Amit Samadder, Soumalya Mukhopadhyay, Sabyasachi Bhattacharya, Ying-Cheng Lai

{"title":"Understanding pesticide-induced tipping in plant-pollinator networks across geographical scales: Prioritizing richness and modularity over nestedness.","authors":"Arnab Chattopadhyay, Amit Samadder, Soumalya Mukhopadhyay, Sabyasachi Bhattacharya, Ying-Cheng Lai","doi":"10.1103/PhysRevE.111.014407","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.014407","url":null,"abstract":"Mutually beneficial interactions between plants and pollinators are crucial for biodiversity, ecosystem stability, and crop production. A threat to a mutualistic network is the occurrence of a tipping point at which the species abundances collapse to a near zero level. In modern agriculture, there is widespread use of pesticides. What are the effects of extensive pesticide use on mutualistic networks? We develop a plant-pollinator-pesticide model and study its dynamics using 123 mutualistic networks across the globe. We demonstrate that pesticide exposure can lead to a tipping point. Furthermore, while the network characteristics such as richness and modularity exhibit a strong association with pesticide-induced tipping, nestedness shows a weak association. A surprising finding is that the mutualistic networks in the African continent are less pesticide tolerant than those in Europe. We articulate and test a pragmatic intervention strategy through targeted management of pesticide levels within specific plant species to delay or avert the tipping point. Our study provides quantitative insights into the phenomenon of pesticide-induced tipping for safeguarding mutualistic networks that are fundamental to agriculture and ecosystems.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-1","pages":"014407"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143459022","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

Burst-tree structure and higher-order temporal correlations.

IF 2.4 3区物理与天体物理

Physical review. E Pub Date : 2025-01-01 DOI: 10.1103/PhysRevE.111.014308

Tibebe Birhanu, Hang-Hyun Jo

{"title":"Burst-tree structure and higher-order temporal correlations.","authors":"Tibebe Birhanu, Hang-Hyun Jo","doi":"10.1103/PhysRevE.111.014308","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.014308","url":null,"abstract":"Understanding the characteristics of temporal correlations in a time series is crucial for developing accurate models in natural and social sciences. The burst-tree decomposition method was recently introduced to reveal temporal correlations in a time series in the form of an event sequence, in particular, the hierarchical structure of bursty trains of events for the entire range of timescales [Jo et al., Sci. Rep. 10, 12202 (2020)10.1038/s41598-020-68157-1]. Such structure cannot be solely captured by the interevent time distribution but can show higher-order correlations beyond interevent times. It has been found to be simply characterized by the burst-merging kernel governing which bursts are merged together as the timescale for defining bursts increases. In this work, we study the effects of kernels on the higher-order temporal correlations in terms of burst-size distributions, memory coefficients for bursts, and the autocorrelation function. We employ several kernels, including the constant, sum, product, and diagonal kernels as well as those inspired by empirical results. We generically find that kernels with preferential merging lead to heavy-tailed burst-size distributions, while kernels with assortative merging lead to positive correlations between burst sizes. The decaying exponent of the autocorrelation function depends not only on the kernel but also on the power-law exponent of the interevent time distribution. In addition, thanks to the analogy to the coagulation process, analytical solutions of burst-size distributions for some kernels could be obtained. Our findings may shed light on the role of burst-merging kernels as underlying mechanisms of higher-order temporal correlations in a time series.","PeriodicalId":20085,"journal":{"name":"Physical review. E","volume":"111 1-1","pages":"014308"},"PeriodicalIF":2.4,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143459032","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