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Assembly theory and its relationship with computational complexity. 装配理论及其与计算复杂度的关系。
Pub Date : 2025-01-01 Epub Date: 2025-09-03 DOI: 10.1038/s44260-025-00049-9
Christopher P Kempes, Michael Lachmann, Andrew Iannaccone, G Matthew Fricke, M Redwan Chowdhury, Sara I Walker, Leroy Cronin

Assembly theory (AT) quantifies selection using the assembly equation, identifying complex objects through the assembly index, the minimal steps required to build an object from basic parts, and copy number, the observed instances of the object. These measure a quantity called Assembly, capturing causation necessary to produce abundant objects, distinguishing selection-driven complexity from random generation. Unlike computational complexity theory, which often emphasizes minimal description length via compressibility, AT explicitly focuses on the causation captured by selection as the mechanism behind complexity. We illustrate formal distinctions through mathematical examples demonstrating that the assembly index is fundamentally distinct from complexity metrics like Shannon entropy, Huffman encoding, and Lempel-Ziv-Welch compression. We provide proofs showing that the assembly index belongs to a different computational complexity class compared to these measures and compression algorithms. Additionally, we highlight AT's unique ontological grounding as a physically measurable framework, setting it apart from abstract theoretical approaches to formalizing life that lack empirical measurement foundations.

装配理论(AT)使用装配方程对选择进行量化,通过装配索引(从基本部件构建一个对象所需的最小步骤)和复制数(该对象的观察实例)来识别复杂对象。这些测量被称为集合的数量,捕获产生大量对象所需的因果关系,将选择驱动的复杂性与随机生成区分开来。与计算复杂性理论不同,计算复杂性理论通常通过可压缩性强调最小描述长度,而AT明确地将重点放在通过选择捕获的因果关系上,作为复杂性背后的机制。我们通过数学实例说明了装配索引与Shannon熵、Huffman编码和Lempel-Ziv-Welch压缩等复杂性度量的本质区别。我们提供的证据表明,与这些度量和压缩算法相比,汇编索引属于不同的计算复杂度类。此外,我们强调了AT作为物理可测量框架的独特本体论基础,将其与缺乏经验测量基础的形式化生命的抽象理论方法区分开来。
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引用次数: 0
Distinguishing mechanisms of social contagion from local network view. 从局部网络视角辨析社会传染机制。
Pub Date : 2025-01-01 Epub Date: 2025-03-04 DOI: 10.1038/s44260-025-00034-2
Elsa Andres, Gergely Ódor, Iacopo Iacopini, Márton Karsai

The adoption of individual behavioural patterns is largely determined by stimuli arriving from peers via social interactions or from external sources. Based on these influences, individuals are commonly assumed to follow simple or complex adoption rules, inducing social contagion processes. In reality, multiple adoption rules may coexist even within the same social contagion process, introducing additional complexity to the spreading phenomena. Our goal is to understand whether coexisting adoption mechanisms can be distinguished from a microscopic view at the egocentric network level without requiring global information about the underlying network, or the unfolding spreading process. We formulate this question as a classification problem, and study it through a likelihood approach and with random forest classifiers in various synthetic and data-driven experiments. This study offers a novel perspective on the observations of propagation processes at the egocentric level and a better understanding of landmark contagion mechanisms from a local view.

个体行为模式的采用在很大程度上是由同伴通过社会互动或外部来源的刺激决定的。基于这些影响,人们通常假定个体遵循简单或复杂的收养规则,从而诱发社会传染过程。在现实中,甚至在同一社会传染过程中,多种收养规则也可能共存,给传播现象带来额外的复杂性。我们的目标是了解共存的采用机制是否可以从微观的角度在自我中心的网络层面上区分开来,而不需要关于底层网络的全局信息,或者展开的传播过程。我们将这个问题表述为一个分类问题,并通过似然方法和随机森林分类器在各种综合和数据驱动的实验中进行研究。本研究提供了一个新的视角来观察自我中心水平的传播过程,并从局部角度更好地理解地标性传染机制。
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引用次数: 0
A perspective on friction interventions to curb the spread of misinformation. 抑制错误信息传播的摩擦干预的观点。
Pub Date : 2025-01-01 Epub Date: 2025-11-03 DOI: 10.1038/s44260-025-00051-1
Laura Jahn, Rasmus K Rendsvig, Alessandro Flammini, Filippo Menczer, Vincent F Hendricks

Social media has enabled the spread of information at unprecedented speeds and scales, and with it the proliferation of high-engagement, low-quality content. Friction-behavioral design measures that make the sharing of content more cumbersome-might be a way to raise the quality of what is spread online. In this perspective, we propose a scalable field experiment to study the effects of friction with a learning component to educate users on the platform's community standards. Preliminary simulations from an agent-based model suggest that while friction alone may decrease the number of posts without improving their quality, it could significantly increase the average quality of posts when combined with learning. The model also suggests that too much friction could be counterproductive. Experimental interventions inspired by these findings would be minimally invasive.

社交媒体使信息以前所未有的速度和规模传播,随之而来的是高参与度、低质量内容的激增。摩擦——使内容分享变得更加繁琐的行为设计措施——可能是提高在线传播内容质量的一种方式。从这个角度来看,我们提出了一个可扩展的现场实验来研究摩擦对学习组件的影响,以教育用户了解平台的社区标准。基于主体模型的初步模拟表明,虽然摩擦本身可能会减少帖子的数量,但不会提高帖子的质量,但如果与学习相结合,它可以显著提高帖子的平均质量。该模型还表明,过多的摩擦可能适得其反。受这些发现启发的实验性干预措施将是微创的。
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引用次数: 0
Spatial structure supports diversity in prebiotic autocatalytic chemical ecosystems. 空间结构支持益生元自催化化学生态系统的多样性。
Pub Date : 2025-01-01 Epub Date: 2025-07-03 DOI: 10.1038/s44260-025-00045-z
Alex M Plum, Christopher P Kempes, Zhen Peng, David A Baum

Autocatalysis is thought to have played an important role in the earliest stages of the origin of life. An autocatalytic cycle (AC) is a set of reactions that results in stoichiometric increase in its constituent chemicals. When the reactions of multiple interacting ACs are active in a region of space, they can have interactions analogous to those between species in biological ecosystems. Prior studies of autocatalytic chemical ecosystems (ACEs) have suggested avenues for accumulating complexity, such as ecological succession, as well as obstacles such as competitive exclusion. We extend this ecological framework to investigate the effects of surface adsorption, desorption, and diffusion on ACE ecology. Simulating ACEs as particle-based stochastic reaction-diffusion systems in spatial environments-including open, two-dimensional reaction-diffusion systems and adsorptive mineral surfaces-we demonstrate that spatial structure can enhance ACE diversity by (i) permitting otherwise mutually exclusive ACs to coexist and (ii) subjecting new AC traits to selection.

自催化作用被认为在生命起源的早期阶段发挥了重要作用。自催化循环(AC)是一组导致其组成化学物质的化学计量增加的反应。当多个相互作用的ac在一个空间区域内反应活跃时,它们可以产生类似于生物生态系统中物种之间的相互作用。先前对自催化化学生态系统(ace)的研究已经提出了积累复杂性的途径,如生态演替,以及竞争排斥等障碍。我们扩展了这个生态框架来研究表面吸附、解吸和扩散对ACE生态的影响。将ACE模拟为空间环境(包括开放的二维反应扩散系统和吸附矿物表面)中基于颗粒的随机反应扩散系统,我们证明了空间结构可以通过以下方式增强ACE多样性:(i)允许互斥的ACE共存;(ii)使新的AC特征得到选择。
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引用次数: 0
Modeling the amplification of epidemic spread by individuals exposed to misinformation on social media. 通过在社交媒体上接触错误信息的个人对流行病传播的放大进行建模。
Pub Date : 2025-01-01 Epub Date: 2025-04-02 DOI: 10.1038/s44260-025-00038-y
Matthew R DeVerna, Francesco Pierri, Yong-Yeol Ahn, Santo Fortunato, Alessandro Flammini, Filippo Menczer

Understanding how misinformation affects the spread of disease is crucial for public health, especially given recent research indicating that misinformation can increase vaccine hesitancy and discourage vaccine uptake. However, it is difficult to investigate the interaction between misinformation and epidemic outcomes due to the dearth of data-informed holistic epidemic models. Here, we employ an epidemic model that incorporates a large, mobility-informed physical contact network as well as the distribution of misinformed individuals across counties derived from social media data. The model allows us to simulate various scenarios to understand how epidemic spreading can be affected by misinformation spreading through one particular social media platform. Using this model, we compare a worst-case scenario, in which individuals become misinformed after a single exposure to low-credibility content, to a best-case scenario where the population is highly resilient to misinformation. We estimate the additional portion of the U.S. population that would become infected over the course of the COVID-19 epidemic in the worst-case scenario. This work can provide policymakers with insights about the potential harms of exposure to online vaccine misinformation.

了解错误信息如何影响疾病传播对公共卫生至关重要,特别是考虑到最近的研究表明,错误信息会增加对疫苗的犹豫并阻碍疫苗的吸收。然而,由于缺乏基于数据的整体流行病模型,很难调查错误信息与流行病结果之间的相互作用。在这里,我们采用了一个流行病模型,该模型结合了一个大型的、流动性信息的身体接触网络,以及来自社交媒体数据的被误导的个人在各个国家的分布。该模型使我们能够模拟各种场景,以了解通过特定社交媒体平台传播的错误信息如何影响流行病的传播。使用这个模型,我们比较了最坏的情况,即个人在一次接触低可信度内容后被误导,以及最好的情况,即人们对错误信息具有高度的弹性。我们估计了在最坏的情况下,在COVID-19流行的过程中,美国人口中被感染的额外比例。这项工作可以为政策制定者提供有关接触在线疫苗错误信息的潜在危害的见解。
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引用次数: 0
Author Correction: Triangulation for causal loop diagrams: constructing biopsychosocial models using group model building, literature review, and causal discovery 作者更正:因果循环图的三角测量:使用群体模型构建、文献回顾和因果发现构建生物心理社会模型
Pub Date : 2024-12-18 DOI: 10.1038/s44260-024-00024-w
Jeroen F. Uleman, Maartje Luijten, Wilson F. Abdo, Jana Vyrastekova, Andreas Gerhardus, Jakob Runge, Naja Hulvej Rod, Maaike Verhagen
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引用次数: 0
How much longer do you have to drive than the crow has to fly? 你开车的时间比乌鸦飞的时间长多少?
Pub Date : 2024-12-12 DOI: 10.1038/s44260-024-00023-x
Shanshan Wang, Henrik M. Bette, Michael Schreckenberg, Thomas Guhr
When travelling by car from one location to another, our route is constrained by the road network. The network distance between the two locations is generally longer than the geodetic distance as the crow flies. We report a systematic relation between the statistical properties of these two distances. Empirically, we find a robust scaling between network and geodetic distance distributions for a variety of large motorway networks. A simple consequence is that we typically have to drive 1.3 ± 0.1 times longer than the crow flies. This scaling is not present in standard random networks; rather, it requires non-random adjacency. We develop a set of rules to build a realistic motorway network, also consistent with the above scaling. We hypothesise that the scaling reflects a compromise between two societal needs: high efficiency and accessibility on the one hand, and limitation of costs and other burdens on the other.
开车从一个地点前往另一个地点时,我们的路线受到公路网的限制。两地之间的网络距离通常比乌鸦飞过的大地测量距离要长。我们报告了这两种距离的统计特性之间的系统关系。根据经验,我们发现在各种大型高速公路网络中,网络距离分布与大地测量距离分布之间存在稳健的比例关系。一个简单的结果是,我们通常要比乌鸦飞的距离长 1.3 ± 0.1 倍。标准的随机网络中不存在这种比例关系;相反,它需要非随机的邻接关系。我们制定了一套规则来构建一个现实的高速公路网络,该网络也符合上述缩放比例。我们假设,这种缩放反映了两种社会需求之间的折衷:一方面是高效率和可达性,另一方面是限制成本和其他负担。
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引用次数: 0
Human behavior-driven epidemic surveillance in urban landscapes 城市景观中人类行为驱动的流行病监测
Pub Date : 2024-12-04 DOI: 10.1038/s44260-024-00021-z
P. Valgañón, A. F. Useche, F. Montes, A. Arenas, D. Soriano-Paños, J. Gómez-Gardeñes
We introduce a surveillance strategy specifically designed for urban areas to enhance preparedness and response to disease outbreaks by leveraging the unique characteristics of human behavior within urban contexts. By integrating data on individual residences and travel patterns, we construct a Mixing matrix that facilitates the identification of critical pathways that ease pathogen transmission across urban landscapes enabling targeted testing strategies. Our approach not only enhances public health systems’ ability to provide early epidemiological alerts but also underscores the variability in strategy effectiveness based on urban layout. We prove the feasibility of our mobility-informed policies by mapping essential mobility links to major transit stations, showing that few resources focused on specific stations yields a more effective surveillance than non-targeted approaches. This study emphasizes the critical role of integrating human behavioral patterns into epidemic management strategies to improve the preparedness and resilience of major cities against future outbreaks.
我们引入了一项专门为城市地区设计的监测战略,通过利用城市环境中人类行为的独特特征,加强对疾病爆发的准备和应对。通过整合个人居住和旅行模式的数据,我们构建了一个混合矩阵,该矩阵有助于识别缓解病原体在城市景观中传播的关键途径,从而实现有针对性的测试策略。我们的方法不仅增强了公共卫生系统提供早期流行病学警报的能力,而且还强调了基于城市布局的战略有效性的可变性。我们通过绘制主要交通站点的基本交通链接来证明我们的交通信息政策的可行性,表明很少有资源集中在特定站点比非目标方法产生更有效的监测。这项研究强调了将人类行为模式纳入流行病管理战略的关键作用,以提高主要城市对未来疫情的准备和复原力。
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引用次数: 0
Rebound in epidemic control: how misaligned vaccination timing amplifies infection peaks 流行病控制中的反弹:疫苗接种时间错位如何放大感染高峰
Pub Date : 2024-11-06 DOI: 10.1038/s44260-024-00020-0
Piergiorgio Castioni, Sergio Gómez, Clara Granell, Alex Arenas
In this study, we explore the dynamic interplay between the timing of vaccination campaigns and the trajectory of disease spread in a population. Through modeling and comprehensive data analysis of model output, we have uncovered a counter-intuitive phenomenon: initiating a vaccination process at an inopportune moment can paradoxically result in a more pronounced second peak of infections. This “rebound” phenomenon challenges the conventional understanding of vaccination impacts on epidemic dynamics. We provide a detailed examination of how improperly timed vaccination efforts can inadvertently reduce the overall immunity level in a population, considering both natural and vaccine-induced immunity. Our findings reveal that such a decrease in population-wide immunity can lead to a delayed, yet more severe, resurgence of cases. This study not only adds a critical dimension to our understanding of vaccination strategies in controlling pandemics but also underscores the necessity for strategically timed interventions to optimize public health outcomes. Furthermore, we compute which vaccination strategies are optimal for a COVID-19 tailored mathematical model, and find that there are two types of optimal strategies. The first type prioritizes vaccinating early and rapidly to reduce the number of deaths, while the second type acts later and more slowly to reduce the number of cases; both of them target primarily the elderly population. Our results hold significant implications for the formulation of vaccination policies, particularly in the context of rapidly evolving infectious diseases.
在本研究中,我们探讨了疫苗接种活动的时机与疾病在人群中传播轨迹之间的动态相互作用。通过对模型输出的建模和综合数据分析,我们发现了一个反直觉的现象:在不恰当的时机启动疫苗接种过程可能会导致更明显的第二个感染高峰。这种 "反弹 "现象挑战了疫苗接种对流行病动态影响的传统认识。考虑到自然免疫和疫苗诱导免疫,我们详细研究了时机不当的疫苗接种工作如何会无意中降低人群的整体免疫水平。我们的研究结果表明,全人群免疫力的下降会导致病例的延迟和更严重的复发。这项研究不仅为我们了解控制大流行病的疫苗接种策略增添了一个重要的维度,而且还强调了适时进行战略干预以优化公共卫生结果的必要性。此外,我们还计算了 COVID-19 定制数学模型的最佳疫苗接种策略,并发现存在两类最佳策略。第一种策略优先考虑早期快速接种疫苗,以减少死亡人数;第二种策略优先考虑晚期缓慢接种疫苗,以减少病例数;这两种策略都主要针对老年人群。我们的研究结果对疫苗接种政策的制定具有重要意义,尤其是在传染病迅速发展的情况下。
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引用次数: 0
Triangulation for causal loop diagrams: constructing biopsychosocial models using group model building, literature review, and causal discovery 因果循环图的三角测量:利用群体模型构建、文献综述和因果发现构建生物-心理-社会模型
Pub Date : 2024-11-05 DOI: 10.1038/s44260-024-00017-9
Jeroen F. Uleman, Maartje Luijten, Wilson F. Abdo, Jana Vyrastekova, Andreas Gerhardus, Jakob Runge, Naja Hulvej Rod, Maaike Verhagen
The complex nature of many health problems necessitates the use of systems thinking tools like causal loop diagrams (CLDs) to visualize the underlying causal network and facilitate computational simulations of potential interventions. However, the construction of CLDs is limited by the constraints and biases of specific sources of evidence. To address this, we propose a triangulation approach that integrates expert and theory-driven group model building, literature review, and data-driven causal discovery. We demonstrate the utility of this triangulation approach using a case example focused on the trajectory of depressive symptoms in response to a stressor in healthy adults. After triangulation with causal discovery, the CLD exhibited (1) greater comprehensiveness, encompassing multiple research fields; (2) a modified feedback structure; and (3) increased transparency regarding the uncertainty of evidence in the model structure. These findings suggest that triangulation can produce higher-quality CLDs, potentially advancing our understanding of complex diseases.
许多健康问题性质复杂,因此有必要使用因果循环图(CLD)等系统思维工具来直观显示潜在的因果网络,并促进对潜在干预措施的计算模拟。然而,CLDs 的构建受到特定证据来源的限制和偏见的制约。为了解决这个问题,我们提出了一种三角测量方法,将专家和理论驱动的小组模型构建、文献综述和数据驱动的因果发现整合在一起。我们通过一个案例来展示这种三角测量方法的实用性,该案例主要关注健康成年人在面对压力时抑郁症状的变化轨迹。经过三角分析和因果发现后,CLD 表现出:(1)更全面,涵盖多个研究领域;(2)修改了反馈结构;(3)增加了模型结构中证据不确定性的透明度。这些研究结果表明,三角测量可以产生更高质量的CLD,从而有可能促进我们对复杂疾病的理解。
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引用次数: 0
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npj Complexity
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