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Hu Z, Wood KB. Deciphering population-level response under spatial drug heterogeneity on microhabitat structures. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.02.13.638200. [PMID: 40027692 PMCID: PMC11870443 DOI: 10.1101/2025.02.13.638200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 03/05/2025]
Abstract
Bacteria and cancer cells live in a spatially heterogeneous environment, where migration shapes the microhabitat structures critical for colonization and metastasis. The interplay between growth, migration, and microhabitat structure complicates the prediction of population responses to drugs, such as clearance or sustained growth, posing a longstanding challenge. Here, we disentangle growth-migration dynamics and identify that population decline is determined by two decoupled terms: a spatial growth variation term and a microhabitat structure term. Notably, the microhabitat structure term can be interpreted as a dynamic-related centrality measure. For fixed spatial drug arrangements, we show that interpreting these centralities reveals how different network structures, even with identical edge densities, microhabitat numbers, and spatial heterogeneity, can lead to distinct population-level responses. Increasing edge density shifts the population response from growth to clearance, supporting an inversed centrality-connectivity relationship, and mirroring the effects of higher migration rates. Furthermore, we derive a sufficient condition for robust population decline across various spatial growth rate arrangements, regardless of spatial-temporal fluctuations induced by drugs. Additionally, we demonstrate that varying the maximum growth-to-death ratio, determined by drug-bacteria interactions, can lead to distinct population decline profiles and a minimal decline phase emerges. These findings address key challenges in predicting population-level responses and provide insights into divergent clinical outcomes under identical drug dosages. This work may offer a new method of interpreting treatment dynamics and potential approaches for optimizing spatially explicit drug dosing strategies.
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Wang J, Mu L, Chun L, Guo X. Modeling and simulation on the spreading dynamics of public opinion information in temporal group networks. Sci Rep 2024; 14:27986. [PMID: 39543394 PMCID: PMC11564530 DOI: 10.1038/s41598-024-79543-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2024] [Accepted: 11/11/2024] [Indexed: 11/17/2024] Open
Abstract
In the new media environment, the constantly emerging social platforms further expand the channels for the propagation of public opinion. Under the framework of complex network theory and faced the needs of management practice, modeling the spreading dynamics of public opinion in temporal group networks is of great significance for understanding its spreading law and improving the governance system of cyberspace and the development of network science. Through analyzing the changes of group networks topology and the spreading rules of public opinion, the spreading model of public opinion in temporal group networks was proposed by coupling the two dynamic processes, and the spreading thresholds of public opinion in static and temporal group networks were derived respectively. Then, the spreading characteristics of public opinion under different network topology, as well as the influence of important parameters on public opinion spreading process were discussed with the help of simulation experiments. The research results indicated that the propagation of public opinion in static and temporal group networks exhibits both similar trends and differentiated characteristics; compared with Spreader, the propagation of public opinion in temporal group networks is more sensitive to Ignorant's behavior; both groups' and netizens' active probability have significant influence on public opinion propagation, but netizens' affects more. Based on the relevant results, this paper proposed a series of countermeasures such as, grading social platforms, strengthening relationship management between them and introducing time management systems, so as to promote the formation of a good network ecosystem and the modernization of the national governance system.
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Affiliation(s)
- Jiakun Wang
- College of Economics and Management, Shandong University of Science and Technology, Qingdao, 266500, China.
| | - Linru Mu
- College of Economics and Management, Shandong University of Science and Technology, Qingdao, 266500, China
| | - Liu Chun
- School of Economics and Management, China University of Petroleum, Qingdao, 266580, China
| | - Xiaotong Guo
- College of Economics and Management, Shandong University of Science and Technology, Qingdao, 266500, China
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Zarghami TS. A new causal centrality measure reveals the prominent role of subcortical structures in the causal architecture of the extended default mode network. Brain Struct Funct 2023; 228:1917-1941. [PMID: 37658184 DOI: 10.1007/s00429-023-02697-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2023] [Accepted: 08/09/2023] [Indexed: 09/03/2023]
Abstract
Network representation has been an incredibly useful concept for understanding the behavior of complex systems in social sciences, biology, neuroscience, and beyond. Network science is mathematically founded on graph theory, where nodal importance is gauged using measures of centrality. Notably, recent work suggests that the topological centrality of a node should not be over-interpreted as its dynamical or causal importance in the network. Hence, identifying the influential nodes in dynamic causal models (DCM) remains an open question. This paper introduces causal centrality for DCM, a dynamics-sensitive and causally-founded centrality measure based on the notion of intervention in graphical models. Operationally, this measure simplifies to an identifiable expression using Bayesian model reduction. As a proof of concept, the average DCM of the extended default mode network (eDMN) was computed in 74 healthy subjects. Next, causal centralities of different regions were computed for this causal graph, and compared against several graph-theoretical centralities. The results showed that the subcortical structures of the eDMN were more causally central than the cortical regions, even though the graph-theoretical centralities unanimously favored the latter. Importantly, model comparison revealed that only the pattern of causal centrality was causally relevant. These results are consistent with the crucial role of the subcortical structures in the neuromodulatory systems of the brain, and highlight their contribution to the organization of large-scale networks. Potential applications of causal centrality-to study causal models of other neurotypical and pathological functional networks-are discussed, and some future lines of research are outlined.
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Affiliation(s)
- Tahereh S Zarghami
- Bio-Electric Department, School of Electrical and Computer Engineering, College of Engineering, University of Tehran, Tehran, Iran.
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Ansari S, Heitzig J, Brzoska L, Lentz HHK, Mihatsch J, Fritzemeier J, Moosavi MR. A Temporal Network Model for Livestock Trade Systems. Front Vet Sci 2021; 8:766547. [PMID: 34966806 PMCID: PMC8710670 DOI: 10.3389/fvets.2021.766547] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2021] [Accepted: 11/08/2021] [Indexed: 12/01/2022] Open
Abstract
The movements of animals between farms and other livestock holdings for trading activities form a complex livestock trade network. These movements play an important role in the spread of infectious diseases among premises. For studying the disease spreading among animal holdings, it is of great importance to understand the structure and dynamics of the trade system. In this paper, we propose a temporal network model for animal trade systems. Furthermore, a novel measure of node centrality important for disease spreading is introduced. The experimental results show that the model can reasonably well describe these spreading-related properties of the network and it can generate crucial data for research in the field of the livestock trade system.
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Affiliation(s)
- Sara Ansari
- Department of Computer Science and Engineering, School of Electrical and Computer Engineering, Shiraz University, Shiraz, Iran
- Department of Complexity Science, Potsdam Institute for Climate Impact Research, Potsdam, Germany
| | - Jobst Heitzig
- Department of Complexity Science, Potsdam Institute for Climate Impact Research, Potsdam, Germany
| | - Laura Brzoska
- Department of Complexity Science, Potsdam Institute for Climate Impact Research, Potsdam, Germany
| | - Hartmut H. K. Lentz
- Institute of Epidemiology, Friedrich-Loeffler-Institut, Greifswald-Insel Riems, Germany
| | - Jakob Mihatsch
- Department of Complexity Science, Potsdam Institute for Climate Impact Research, Potsdam, Germany
| | - Jörg Fritzemeier
- Landkreis Osnabrück, Veterinärdienst für Stadt und Landkreis Osnabrück, Osnabruck, Germany
| | - Mohammad R. Moosavi
- Department of Computer Science and Engineering, School of Electrical and Computer Engineering, Shiraz University, Shiraz, Iran
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Hirata Y. Topological epidemic model: Theoretical insight into underlying networks. CHAOS (WOODBURY, N.Y.) 2020; 30:101103. [PMID: 33138460 DOI: 10.1063/5.0023796] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2020] [Accepted: 10/05/2020] [Indexed: 06/11/2023]
Abstract
Although there are various models of epidemic diseases, there are a few individual-based models that can guide susceptible individuals on how they should behave in a pandemic without its appropriate treatment. Such a model would be ideal for the current coronavirus disease 2019 (COVID-19) pandemic. Thus, here, we propose a topological model of an epidemic disease, which can take into account various types of interventions through a time-dependent contact network. Based on this model, we show that there is a maximum allowed number of persons one can see each day for each person so that we can suppress the epidemic spread. Reducing the number of persons to see for the hub persons is a key countermeasure for the current COVID-19 pandemic.
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Affiliation(s)
- Yoshito Hirata
- Faculty of Engineering, Information and Systems, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8573, Japan
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Identifying critical nodes in temporal networks by network embedding. Sci Rep 2020; 10:12494. [PMID: 32719327 PMCID: PMC7385106 DOI: 10.1038/s41598-020-69379-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2019] [Accepted: 06/22/2020] [Indexed: 02/02/2023] Open
Abstract
Critical nodes in temporal networks play more significant role than other nodes on the structure and function of networks. The research on identifying critical nodes in temporal networks has attracted much attention since the real-world systems can be illustrated more accurately by temporal networks than static networks. Considering the topological information of networks, the algorithm MLI based on network embedding and machine learning are proposed in this paper. we convert the critical node identification problem in temporal networks into regression problem by the algorithm. The effectiveness of proposed methods is evaluated by SIR model and compared with well-known existing metrics such as temporal versions of betweenness, closeness, k-shell, degree deviation and dynamics-sensitive centralities in one synthetic and five real temporal networks. Experimental results show that the proposed method outperform these well-known methods in identifying critical nodes under spreading dynamic.
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Entropy-Based Measure for Influence Maximization in Temporal Networks. LECTURE NOTES IN COMPUTER SCIENCE 2020. [PMCID: PMC7303715 DOI: 10.1007/978-3-030-50423-6_21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 10/30/2022]
Abstract
The challenge of influence maximization in social networks is tackled in many settings and scenarios. However, the most explored variant is looking at how to choose a seed set of a given size, that maximizes the number of activated nodes for selected model of social influence. This has been studied mostly in the area of static networks, yet other kinds of networks, such as multilayer or temporal ones, are also in the scope of recent research. In this work we propose and evaluate the measure based on entropy, that investigates how the neighbourhood of nodes varies over time, and based on that and their activity ranks, the nodes as possible candidates for seeds are selected. This measure applied for temporal networks intends to favor nodes that vary their neighbourhood highly and, thanks to that, are good spreaders for certain influence models. The results demonstrate that for the Independent Cascade Model of social influence the introduced entropy-based metric outperforms typical seed selection heuristics for temporal networks. Moreover, compared to some other heuristics, it is fast to compute, thus can be used for fast-varying temporal networks.
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Dutta R, Maity R. Temporal evolution of hydroclimatic teleconnection and a time-varying model for long-lead prediction of Indian summer monsoon rainfall. Sci Rep 2018; 8:10778. [PMID: 30018395 PMCID: PMC6050344 DOI: 10.1038/s41598-018-28972-z] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Accepted: 06/25/2018] [Indexed: 11/08/2022] Open
Abstract
Several cases of failure in the prediction of Indian Summer Monsoon Rainfall (ISMR) are the major concern for long-lead prediction. We propose that this is due to the temporal evolution of association/linkage (inherent concept of temporal networks) with various factors and climatic indices across the globe, such as El Niño-Southern Oscillation (ENSO), Equatorial Indian Ocean Oscillation (EQUINOO), Atlantic Multidecadal Oscillation (AMO), North Atlantic Oscillation (NAO), Pacific Decadal Oscillation (PDO) etc. Static models establish time-invariant (permanent) connections between such indices (predictors) and predictand (ISMR), whereas we hypothesize that such systems are temporally varying in nature. Considering hydroclimatic teleconnection with two major climate indices, ENSO and EQUINOO, we showed that the temporal persistence of the association is as low as three years. As an application of this concept, a statistical time-varying model is developed and the prediction performance is compared against its static counterpart (time-invariant model). The proposed approach is able to capture the ISMR anomalies and successfully predicts the severe drought years too. Specifically, 64% more accurate performance (in terms of RMSE) is achievable by the recommended time-varying approach as compared to existing time-invariant concepts.
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Affiliation(s)
- Riya Dutta
- Department of Civil Engineering, Indian Institute of Technology Kharagpur, Kharagpur, 721302,, West Bengal, India
| | - Rajib Maity
- Department of Civil Engineering, Indian Institute of Technology Kharagpur, Kharagpur, 721302,, West Bengal, India.
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Enright J, Kao RR. Epidemics on dynamic networks. Epidemics 2018; 24:88-97. [PMID: 29907403 DOI: 10.1016/j.epidem.2018.04.003] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2016] [Revised: 04/23/2018] [Accepted: 04/24/2018] [Indexed: 11/26/2022] Open
Abstract
In many populations, the patterns of potentially infectious contacts are transients that can be described as a network with dynamic links. The relative timescales of link and contagion dynamics and the characteristics that drive their tempos can lead to important differences to the static case. Here, we propose some essential nomenclature for their analysis, and then review the relevant literature. We describe recent advances in they apply to infection processes, considering all of the methods used to record, measure and analyse them, and their implications for disease transmission. Finally, we outline some key challenges and opportunities in the field.
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Affiliation(s)
- Jessica Enright
- Global Academy for Agriculture and Food Security, University of Edinburgh Easter Bush Campus, Midlothian EH25 9RG, United Kingdom
| | - Rowland Raymond Kao
- Royal (Dick) School of Veterinary Studies and Roslin Institute University of Edinburgh Easter Bush Campus, Midlothian EH25 9RG, United Kingdom.
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Fractal and multifractal analyses of bipartite networks. Sci Rep 2017; 7:45588. [PMID: 28361962 PMCID: PMC5374526 DOI: 10.1038/srep45588] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2016] [Accepted: 02/27/2017] [Indexed: 11/29/2022] Open
Abstract
Bipartite networks have attracted considerable interest in various fields. Fractality and multifractality of unipartite (classical) networks have been studied in recent years, but there is no work to study these properties of bipartite networks. In this paper, we try to unfold the self-similarity structure of bipartite networks by performing the fractal and multifractal analyses for a variety of real-world bipartite network data sets and models. First, we find the fractality in some bipartite networks, including the CiteULike, Netflix, MovieLens (ml-20m), Delicious data sets and (u, v)-flower model. Meanwhile, we observe the shifted power-law or exponential behavior in other several networks. We then focus on the multifractal properties of bipartite networks. Our results indicate that the multifractality exists in those bipartite networks possessing fractality. To capture the inherent attribute of bipartite network with two types different nodes, we give the different weights for the nodes of different classes, and show the existence of multifractality in these node-weighted bipartite networks. In addition, for the data sets with ratings, we modify the two existing algorithms for fractal and multifractal analyses of edge-weighted unipartite networks to study the self-similarity of the corresponding edge-weighted bipartite networks. The results show that our modified algorithms are feasible and can effectively uncover the self-similarity structure of these edge-weighted bipartite networks and their corresponding node-weighted versions.
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