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Emergent dimer-model topological order and quasi-particle excitations in liquid crystals: combinatorial vortex lattices

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arXiv 2025年

作者： Meng, Cuiling Wu, Jin-Sheng Kos, Žiga Dunkel, Jörn Nisoli, Cristiano Smalyukh, Ivan I. Department of Physics and Chemical Physics Program University of Colorado BoulderCO80309 United States Hiroshima University Hiroshima Higashihiroshima Japan Department of Mathematics Massachusetts Institute of Technology CambridgeMA02139 United States Faculty of Mathematics and Physics University of Ljubljana Ljubljana Slovenia Department of Condensed Matter Physics Jožef Stefan Institute Ljubljana Slovenia Theoretical Division Physics of Condensed Matter and Complex Systems Center For Nonlinear Studies Los Alamos National Laboratory Los AlamosNM87545 United States Department of Electrical Computer and Energy Engineering Materials Science and Engineering Program University of Colorado BoulderCO80309 United States Renewable and Sustainable Energy Institute National Renewable Energy Laboratory University of Colorado BoulderCO80309 United States

Liquid crystals have proven to provide a versatile experimental and theoretical platform for studying topological objects such as vortices, skyrmions, and hopfions. In parallel, in hard condensed matter physics, the concept of topological phases and topological order has been introduced in the context of spin liquids to investigate emergent phenomena like quantum Hall effects and high-temperature superconductivity. Here, we bridge these two seemingly disparate perspectives on topology in physics. Combining experiments and simulations, we show how topological defects in liquid crystals can be used as versatile building blocks to create complex, highly degenerate topological phases, which we refer to as ‘Combinatorial Vortex Lattices’ (CVLs). CVLs exhibit extensive residual entropy and support locally stable quasi-particle excitations in the form of charge-conserving topological monopoles, which can act as mobile information carriers and be linked via Dirac strings. CLVs can be rewritten and reconfigured on demand, endowed with various symmetries, and modified through laser-induced topological surgery — an essential capability for information storage and retrieval. We demonstrate experimentally the realization, stability, and precise optical manipulation of CVLs, thus opening new avenues for understanding and technologically exploiting higher-hierarchy topology in liquid crystals and other ordered media. Copyright © 2025, The Authors. All rights reserved.

关键词： Laser surgery

Grand challenges and emergent modes of convergence science

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arXiv 2021年

作者： Petersen, Alexander M. Ahmed, Mohammed E. Pavlidis, Ioannis Department of Management of Complex Systems Ernest and Julio Gallo Management Program School of Engineering University of California MercedCA95343 United States Computational Physiology Laboratory University of Houston HoustonTX77204 United States

To address complex problems, scholars are increasingly faced with challenges of integrating diverse knowledge domains. We analyzed the evolution of this convergence paradigm in the broad ecosystem of brain science, which provides a real-time testbed for evaluating two modes of cross-domain integration - subject area exploration via expansive learning and cross-disciplinary collaboration among domain experts. We show that research involving both modes features a 16% citation premium relative to a mono-disciplinary baseline. Further comparison of research integrating neighboring versus distant research domains shows that the cross-disciplinary mode is essential for integrating across relatively large disciplinary distances. Yet we find research utilizing cross-domain subject area exploration alone - a convergence shortcut - to be growing in prevalence at roughly 3% per year, significantly faster than the alternative cross-disciplinary mode, despite being less effective at integrating domains and markedly less impactful. By measuring shifts in the prevalence and impact of different convergence modes in the 5-year intervals before and after 2013, our results indicate that these counterproductive patterns may relate to competitive pressures associated with global Human Brain flagship funding initiatives. Without additional policy guidance, such Grand Challenge flagships may unintentionally incentivize such convergence shortcuts, thereby undercutting the advantages of cross-disciplinary teams in tackling challenges calling on convergence. © 2021, CC BY.

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Biomedical convergence facilitated by the emergence of technological and informatic capabilities

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arXiv 2021年

作者： Yang, Dong Pavlidis, Ioannis Petersen, Alexander Michael Department of Management of Complex Systems Ernest and Julio Gallo Management Program School of Engineering University of California MercedCA95343 United States Computational Physiology Laboratory University of Houston HoustonTX77204 United States

We analyzed Medical Subject Headings (MeSH) from 21.6 million research articles indexed by PubMed to map this vast space of entities and their relations, providing insights into the origins and future of biomedical convergence. Detailed analysis of MeSH co-occurrence networks identifies three robust knowledge clusters: the vast universe of microscopic biological entities and structures;systems, disease and diagnostics;and emergent biological and social phenomena underlying the complex problems driving the health, behavioral and brain science frontiers. These domains integrated from the 1990s onward by way of technological and informatic capabilities that introduced highly controllable, scalable and permutable research processes and invaluable imaging techniques for illuminating fundamental structure-function-behavior questions. Article-level analysis confirms a positive relationship between team size and topical diversity, and shows convergence to be increasing in prominence but with recent saturation. Together, our results invite additional policy support for cross-disciplinary team assembly to harness transdisciplinary convergence. © 2021, CC BY.

关键词： Diagnosis

Oscillation Quenching in Stuart-Landau Oscillators via Dissimilar Repulsive Coupling

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arXiv 2022年

作者： Dutta, Subhasanket Alamoudi, Omar Vakilna, Yash Shashank Pati, Sandipan Jalan, Sarika Complex Systems Lab Department of Physics Indian Institute of Technology Indore Khandwa Road Indore Simrol453552 India Texas Institute for Restorative Neurotechnologies The University of Texas Health Science Center at Houston HoustonTX77225 United States Department of Biosciences and Biomedical Engineering Indian Institute of Technology Indore Khandwa Road Simrol Indore453552 India Biomedical Engineering Program King Abdulaziz University Jeddah Saudi Arabia

Quenching of oscillations, namely amplitude and oscillations death, is an emerging phenomenon exhibited by many real-world complex systems. Here, we introduce a scheme that combines dissimilar couplings and repulsive feedback links for the interactions of Stuart Landau oscillators and analytically derive the conditions required for the amplitude death. Importantly, this analysis is independent of the network size, presents a generalized approach to calculate the stability conditions for various different coupling schemes, and befits for non-identical oscillators as well. Last, we discuss the similarities of the quenching of oscillations phenomenon with the postictal generalized EEG suppression in convulsive seizures. Copyright © 2022, The Authors. All rights reserved.

关键词： Quenching

Simultaneous creation of multiple vortex-antivortex pairs in momentum space in photonic lattices

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Advanced Photonics 2023年第6期5卷 92-100页

作者： Feng Li Sergei V.Koniakhin Anton V.Nalitov Evgeniia Cherotchenko Dmitry D.Solnyshkov Guillaume Malpuech Min Xiao Yanpeng Zhang Zhaoyang Zhang Xi'an Jiaotong University Key Laboratory for Physical Electronics and Devices of the Ministry of EducationShaanxi Key Laboratory of Information Photonic TechniqueSchool of Electronic Science and EngineeringFaculty of Electronics and InformationXi’anChina Institute for Basic Science Center for Theoretical Physics of Complex SystemsDaejeonRepublic of Korea Korea University of Science and Technology(UST) Basic Science ProgramDaejeonRepublic of Korea Moscow Institute of Physics and Technology DolgoprudnyiRussia University of Wolverhampton Faculty of Science and EngineeringWolverhamptonUnited Kingdom ITMO University St.PetersburgRussia Ioffe Institute St.PetersburgRussia UniversitéClermont Auvergne Institut PascalPHOTON-N2CNRSClermont INPClermont-FerrandFrance Institut Universitaire de France ParisFrance University of Arkansas Department of PhysicsFayettevilleArkansasUnited States Nanjing University School of PhysicsNational Laboratory of Solid State MicrostructuresNanjingChina

engineering of the orbital angular momentum(OAM)of light due to interaction with photonic lattices reveals rich physics and motivates potential *** report the experimental creation of regularly distributed quantized vortex arrays in momentum space by probing the honeycomb and hexagonal photonic lattices with a single focused Gaussian *** the honeycomb lattice,the vortices are associated with Dirac ***,we show that the resulting spatial patterns of vortices are strongly defined by the symmetry of the wave packet evolving in the photonic lattices and not by their topological *** findings reveal the underlying physics by connecting the symmetry and OAM conversion and provide a simple and efficient method to create regularly distributed multiple vortices from unstructured light.

关键词： vortex photonic lattice orbital angular momentum topology symmetry

Interactions of velocity structures between large and small scales in microelectrokinetic turbulence

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Physical Review Fluids 2021年第7期6卷 074610-074610页

作者： Wei Zhao Weidong Su Guiren Wang State Key Laboratory of Photon-Technology in Western China Energy International Scientific and Technological Cooperation Base of Photoelectric Technology and Functional Materials and Application Institute of Photonics and Photon-technology Northwest University Xi’an 710127 China State Key Laboratory for Turbulence and Complex Systems College of Engineering Peking University Beijing China 100871 Department of Mechanical Engineering & Biomedical Engineering Program University of South Carolina Columbia South Carolina 29208 USA

Recent investigations on electrokinetic (EK) flows have indicated turbulentlike flow can be realized by applying strong and high frequency ac electric field to flows with high-conductivity-gradient interface, even though under low bulk flow Reynolds number. Relative to conventionally hydrodynamic turbulence in a high Reynolds number, the ac EK turbulent flow exhibits high randomness with stronger intermittency [Wang et al., Phys. Rev. E 93, 013106 (2016)]. The abnormally high intermittency could be attributed to the ascending probability density function of velocity gradients (dominated by small scale velocity structure function) far from the equilibrium state. By evaluating the intermittency of the ac EK turbulent flow with hierarchical structures, we astonishingly find the intermittency factor of hierarchical structures in SL94 law, i.e., β factor, which is commonly believed to be between 0 and 1, exhibits larger value than 1 in the ac EK turbulent flow. This result indicates the different hierarchical relations of flow structures in ac EK turbulence flow from that in the conventional hydrodynamic turbulence, as further illustrated by the probability density function of velocity structures among different spatial scales.

关键词： Electrokinetic flows Microfluidics Turbulence

Instruction Multi-Constraint Molecular Generation Using a Teacher-Student Large Language Model

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arXiv 2024年

作者： Zhou, Peng Wang, Jianmin Li, Chunyan Wang, Zixu Liu, Yiping Sun, Siqi Lin, Jianxin Wei, Leyi Cai, Xibao Lai, Houtim Liu, Wei Wang, Longyue Liu, Yuansheng Zeng, Xiangxiang College of Information Science and Engineering Hunan University Changsha China The Interdisciplinary Graduate Program in Integrative Biotechnology Yonsei University Incheon21983 Korea Republic of School of Informatics Yunnan Normal University Kunming650500 China Department of Computer Science University of Tsukuba Tsukuba3058577 Japan Research Institute of Intelligent Complex Systems Fudan University Shanghai200433 China Shanghai AI Laboratory Shanghai200232 China Centre for Artificial Intelligence driven Drug Discovery Faculty of Applied Science Macao Polytechnic University China School of Informatics Xiamen University Xiamen China Tencent AI Lab China

While various models and computational tools have been proposed for structure and property analysis of molecules, generating molecules that conform to all desired structures and properties remains a challenge. Here, we introduce a multi-constraint molecular generation large language model, TSMMG, which, akin to a student, incorporates knowledge from various small models and tools, namely, the 'teachers'. To train TSMMG, we construct a large set of text-molecule pairs by extracting molecular knowledge from these 'teachers', enabling it to generate novel molecules that conform to the descriptions through various text prompts. We experimentally show that TSMMG remarkably performs in generating molecules meeting complex, natural language-described property requirements across two-, three-, and four-constraint tasks, with an average molecular validity of over 99% and success ratio of 82.58%, 68.03%, and 67.48%, respectively. The model also exhibits adaptability through zero-shot testing, creating molecules that satisfy combinations of properties that have not been encountered. It can comprehend text inputs with various language styles, extending beyond the confines of outlined prompts, as confirmed through empirical validation. Additionally, the knowledge distillation feature of TSMMG contributes to the continuous enhancement of small models, while the innovative approach to dataset construction effectively addresses the issues of data scarcity and quality, which positions TSMMG as a promising tool in the domains of drug discovery and materials science. Copyright © 2024, The Authors. All rights reserved.

关键词： Students

Quantum transient heat transport in the hyperparametric oscillator

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Physical Review A 2021年第5期104卷 052220-052220页

作者： JungYun Han Daniel Leykam Dimitris G. Angelakis Juzar Thingna Center for Theoretical Physics of Complex Systems Institute for Basic Science (IBS) Daejeon 34126 Republic of Korea Basic Science Program University of Science and Technology (UST) Daejeon 34113 Republic of Korea Centre for Quantum Technologies National University of Singapore 3 Science Drive 2 Singapore 117543 School of Electrical and Computer Engineering Technical University of Crete Chania Crete 73100 Greece

We explore nonequilibrium quantum heat transport in nonlinear bosonic systems in the presence of a non-Kerr-type interaction governed by hyperparametric oscillation due to two-photon hopping between the two cavities. We estimate the thermodynamic response analytically by constructing the su(2) algebra of the nonlinear Hamiltonian and predict that the system exhibits a negative excitation mode. Consequently, this specific form of interaction enables the cooling of the system by inducing a ground-state transition when the number of particles increases, even though the interaction strength is small. We demonstrate a transition of the heat current numerically in the presence of symmetric coupling between the system and the bath and show long relaxation times in the cooling phase. We compare with the Kerr-type Bose-Hubbard form of interaction induced via cross-phase modulation, which does not exhibit any such transition. We further compute the nonequilibrium heat current in the presence of two baths at different temperatures and observe that the cooling effect for the non-Kerr-type interaction persists. Our findings may help in the manipulation of quantum states using the system's interactions to induce cooling.

关键词： Quantum optics Quantum thermodynamics Quantum transport

How Microbes Shape Their Communities? A Microbial Community Model Based on Functional Genes

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Genomics, Proteomics & Bioinformatics 2019年第1期17卷 91-105页

作者： Xiaoqing Jiang Xin Li Longshu Yang Chunhong Liu Qi Wang Weilai Chi Huaiqiu Zhu State Key Laboratory for Turbulence and Complex Systems Department of Biomedical Engineering College of Engineering Peking University Center for Quantitative Biology Peking University Peking University-Tsinghua University-National Institute of Biological Sciences Joint Biological (PTN) PhD Program and College of Life Sciences Peking University Center for Protein Science Peking University

Exploring the mechanisms of maintaining microbial community structure is important to understand biofilm development or microbiota dysbiosis. In this paper, we propose a functional gene-based composition prediction(FCP) model to predict the population structure composition within a microbial community. The model predicts the community composition well in both a low-complexity community as acid mine drainage(AMD) microbiota, and a complex community as human gut microbiota. Furthermore, we define community structure shaping(CSS) genes as functional genes crucial for shaping the microbial community. We have identified CSS genes in AMD and human gut microbiota samples with FCP model and find that CSS genes change with the conditions. Compared to essential genes for microbes, CSS genes are significantly enriched in the genes involved in mobile genetic elements, cell motility, and defense mechanisms, indicating that the functions of CSS genes are focused on communication and strategies in response to the environment factors. We further find that it is the minority, rather than the majority, which contributes to maintaining community structure. Compared to health control samples, we find that some functional genes associated with metabolism of amino acids, nucleotides, and lipopolysaccharide are more likely to be CSS genes in the disease group. CSS genes may help us to understand critical cellular processes and be useful in seeking addable gene circuitries to maintain artificial self-sustainable communities. Our study suggests that functional genes are important to the assembly of microbial communities.

关键词： Metagenomics Dynamics model Community structure Acid mine drainage Human gut microbiota