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arXiv 2025年

作者： Almagro-Pérez, Cristina Song, Andrew H. Weishaupt, Luca Kim, Ahrong Jaume, Guillaume Williamson, Drew F.K. Hemker, Konstantin Lu, Ming Y. Singh, Kritika Chen, Bowen Le, Long Phi Baras, Alexander S. Jiang, Sizun Bashashati, Ali Liu, Jonathan T.C. Mahmood, Faisal Department of Pathology Mass General Brigham Harvard Medical School BostonMA United States Cancer Program Broad Institute of Harvard and MIT CambridgeMA United States Data Science Program Dana-Farber Cancer Institute BostonMA United States Harvard-MIT Division of Health Sciences and Technology Massachusetts Institute of Technology CambridgeMA United States Department of Pathology Pusan National University Busan Korea Republic of Department of Pathology and Laboratory Medicine Emory University School of Medicine AtlantaGA United States Department of Computer Science & Technology University of Cambridge Cambridge United Kingdom Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology CambridgeMA United States Rutgers Robert Wood Johnson Medical School New BrunswickNJ United States Department of Pathology Johns Hopkins Hospital BaltimoreMD United States Department of Biomedical Engineering Johns Hopkins Hospital BaltimoreMD United States Broad Institute of Harvard and MIT CambridgeMA United States Center for Virology and Vaccine Research Beth Israel Deaconess Medical Center Harvard Medical School BostonMA United States Department of Pathology Dana Farber Cancer Institute BostonMA United States Department of Pathology and Laboratory Medicine University of British Columbia VancouverBC Canada School of Biomedical Engineering University of British Columbia VancouverBC Canada Department of Mechanical Engineering Bioengineering Laboratory Medicine & Pathology University of Washington SeattleWA United States Harvard Data Science Initiative Harvard University CambridgeMA United States

A comprehensive three-dimensional (3D) map of tissue architecture and gene expression is crucial for illuminating the complexity and heterogeneity of tissues across diverse biomedical applications1. However, most spatial transcriptomics (ST) approaches remain limited to two-dimensional (2D) sections of tissue2–4. Although current 3D ST methods hold promise, they typically require extensive tissue sectioning, are complex, are not compatible with non-destructive 3D tissue imaging technologies, and often lack scalability5–8. Here, we present VOlumetrically Resolved Transcriptomics EXpression (VORTEX), an AI framework that leverages 3D tissue morphology and minimal 2D ST to predict volumetric 3D ST. By pretraining on diverse 3D morphology–transcriptomic pairs from heterogeneous tissue samples and then fine-tuning on minimal 2D ST data from a specific volume of interest, VORTEX learns both generic tissue-related and sample-specific morphological correlates of gene expression. This approach enables dense, high-throughput, and fast 3D ST, scaling seamlessly to large tissue volumes far beyond the reach of existing 3D ST techniques. By offering a cost-effective and minimally destructive route to obtaining volumetric molecular insights, we anticipate that VORTEX will accelerate biomarker discovery and our understanding of morphomolecular associations and cell states in complex tissues. Interactive 3D ST volumes can be viewed at https://***/. © 2025, CC BY-NC-ND.

关键词： Vortex flow

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Quantum simulation of an extended Dicke model with a magnetic solid

Communications Materials

引用

Communications Materials 2024年第1期5卷 1-9页

作者： Marquez Peraca, Nicolas Li, Xinwei Moya, Jaime M. Hayashida, Kenji Kim, Dasom Ma, Xiaoxuan Neubauer, Kelly J. Fallas Padilla, Diego Huang, Chien-Lung Dai, Pengcheng Nevidomskyy, Andriy H. Pu, Han Morosan, Emilia Cao, Shixun Bamba, Motoaki Kono, Junichiro Department of Physics and Astronomy Rice University HoustonTX United States Department of Physics California Institute of Technology PasadenaCA United States Applied Physics Graduate Program Smalley–Curl Institute Rice University HoustonTX United States Division of Applied Physics Graduate School of Engineering Hokkaido University Hokkaido Japan Department of Electrical and Computer Engineering Rice University HoustonTX United States Department of Physics International Center of Quantum and Molecular Structures and Materials Genome Institute Shanghai University Shanghai China Department of Physics and Center for Quantum Frontiers of Research and Technology National Cheng Kung University Tainan Taiwan Department of Chemistry Rice University HoustonTX United States Department of Physics I Kyoto University Kyoto Japan The Hakubi Center for Advanced Research Kyoto University Kyoto Japan PRESTO Japan Science and Technology Agency Saitama Japan Department of Physics Yokohama National University Yokohama Japan Department of Materials Science and NanoEngineering Rice University HoustonTX United States

The Dicke model describes the cooperative interaction of an ensemble of two-level atoms with a single-mode photonic field and exhibits a quantum phase transition as a function of light–matter coupling strength. Extending this model by incorporating short-range atom–atom interactions makes the problem intractable but is expected to produce new physical phenomena and phases. Here, we simulate such an extended Dicke model using a crystal of ErFeO3, where the role of atoms (photons) is played by Er3+ spins (Fe3+ magnons). Through terahertz spectroscopy and magnetocaloric effect measurements as a function of temperature and magnetic field, we demonstrated the existence of a novel atomically ordered phase in addition to the superradiant and normal phases that are expected from the standard Dicke model. Further, we elucidated the nature of the phase boundaries in the temperature–magnetic-field phase diagram, identifying both first-order and second-order phase transitions. These results lay the foundation for studying multiatomic quantum optics models using well-characterized many-body solid-state systems. © The Author(s) 2024.

关键词： Atoms

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Publisher Correction: Deciphering DNA variant-associated aberrant splicing with the aid of RNA sequencing

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Nature genetics 2023年第7期55卷 1251页

作者： Bin Zhang Xin Gao Computer Science Program Computer Electrical and Mathematical Sciences and Engineering Division King Abdullah University of Science and Technology (KAUST) Thuwal Saudi Arabia. KAUST Computational Bioscience Research Center King Abdullah University of Science and Technology Thuwal Saudi Arabia. Computer Science Program Computer Electrical and Mathematical Sciences and Engineering Division King Abdullah University of Science and Technology (KAUST) Thuwal Saudi Arabia. xin.gao@kaust.edu.sa. KAUST Computational Bioscience Research Center King Abdullah University of Science and Technology Thuwal Saudi Arabia. xin.gao@kaust.edu.sa.

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Response to Comment on (Novel two-dimensional porous graphitic carbon nitride C6N7 monolayer: A First-principle calculations [Appl. Phys. Lett. 2021, 119, 142102])

arXiv

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arXiv 2022年

作者： Bafekry, Asadollah Faraji, Mehrdad Fadlallah, Mohamed M. Sarsari, I. Abdolhosseini Jappor, Hamad R. Fazeli, Sara Ghergherehchi, Mitra Department of Radiation Application Shahid Beheshti University Tehran Iran Micro and Nanotechnology Graduate Program TOBB University of Economics and Technology Sogutozu Caddesi No 43 Sogutozu Ankara06560 Turkey Department of Physics Faculty of Science Benha University Benha13518 Egypt Department of Physics Isfahan University of Technology Isfahan84156-83111 Iran Department of Physics College of Education for Pure Sciences University of Babylon Hilla Iraq Department of Material Science and Engineering Sharif University of Technology PO Box 11155-9466 Tehran Iran Department of Electrical and Computer Engineering Sungkyunkwan University Suwon16419 Korea Republic of

Recently, reported a comments on the our paper [Appl. Phys. Lett. 119, 142102(2021)]. With our response, the APL journal rejected their non scientificcomments. There are some ambiguities about their claim: 1-They can check thephonon dispersion of their structure to see ZA out-of-plane mode. 2-They reportthe uniaxial stress-strain responses in Fig 2., which is unrelated to ourpaper. For a more helpful understanding of the mechanical properties of thenovel C6N7 monolayer, they can publish a paper. 3-They mentioned: Using the DFTmethod and with assuming a thickness of 3.35 A for the C6N7 monolayer based ongraphene thickness. Why did they choose this thickness while we know our C6N7monolayer is at without buckling? The distance of ZA out-of-plane movement ofions in C6N7 is different from Graphene. © 2022, CC BY.

关键词： Monolayers

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Riemann-Encircling Exceptional Points for Efficient Asymmetric Polarization-Locked Devices

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Physical Review Letters 2022年第12期129卷 127401-127401页

作者： Aodong Li Weijin Chen Heng Wei Guowei Lu Andrea Alù Cheng-Wei Qiu Lin Chen Wuhan National Laboratory for Optoelectronics and School of Optical and Electronic Information Huazhong University of Science and Technology Wuhan 430074 China Department of Electrical and Computer Engineering National University of Singapore Singapore 117583 Singapore State Key Laboratory for Mesoscopic Physics School of Physics Peking University Beijing 100871 China Photonics Initiative Advanced Science Research Center City University of New York New York New York 10031 USA Physics Program Graduate Center City University of New York New York New York 10016 USA

Dynamically encircling exceptional points (EPs) have unveiled intriguing chiral dynamics in photonics. However, the traditional approach based on an open manifold of Hamiltonian parameter space fails to explore trajectories that pass through an infinite boundary. Here, by mapping the full parameter space onto a closed manifold of the Riemann sphere, we introduce a framework to describe encircling-EP loops. We demonstrate that an encircling trajectory crossing the north vertex can realize near-unity asymmetric transmission. An efficient gain-free, broadband asymmetric polarization-locked device is realized by mapping the encircling path onto L-shaped silicon waveguides.

关键词： PT-symmetric quantum mechanics Photonics

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LoRaWAN Intelligent Outdoor Smart Street Lighting

LoRaWAN Intelligent Outdoor Smart Street Lighting

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IEEE International Conference on Communication, Networks and Satellite (ComNetSat)

作者： Pandapotan Siagian Erick Fernando Faculty of Informatics and Electrical Engineering Computer Engineering Study Program Del Institute of Technology North Sumatera Indonesia School of Information Systems Bina Nusantara University Jakarta Indonesia

ISBN: (数字)9780738125176

ISBN: (纸本)9781665418614

Nowadays, The roads have increased the number of streetlights for the roads vehicles/pedestrians, which raises investment and energy. Observations made to obtain most of the road lights are always active at night, even when there are no vehicles or pedestrians on the road. The problems that occur are the waste of energy sources that are used in streetlights. This research designs the concept of intelligent traffic flow based (LED) for energy optimization, maximum efficiency. This concept uses intelligent light architecture using the LoRaWAN Mesh network. The application of this concept offers system reliability, reduces costs, and makes user satisfaction. The results of this study are demonstrated by experimenting with comparing conventional LED lights. The proposed system, resulting in 33% to 62% energy savings depending on when the usage process in streetlights. Smart lighting LEDs with LoRaWAN provide a remote-control mechanism that can be dynamically adjusted based on environmental conditions, distance, and automatic motion.

关键词： Lighting Sensors Light emitting diodes Intelligent sensors Sensor systems Batteries Roads

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Unbiased Estimation Using a Class of Diffusion Processes

SSRN

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SSRN 2022年

作者： Ruzayqat, Hamza Beskos, Alexandros Crisan, Dan Jasra, Ajay Kantas, Nikolas Applied Mathematics and Computational Science Program Computer Electrical and Mathematical Sciences and Engineering Division King Abdullah University of Science and Technology Thuwal23955-6900 Saudi Arabia Department of Statistical Science University College London LondonWC1E 6BT United Kingdom Department of Mathematics Imperial College London LondonSW7 2AZ United Kingdom

We study the problem of unbiased estimation of expectations with respect to (w.r.t.) π a given, general probability measure on (Rd,B(Rd)) that is absolutely continuous with respect to a standard Gaussian measure. We focus on simulation associated to a particular class of diffusion processes, sometimes termed the Schrödinger-Föllmer Sampler, which is a simulation technique that approximates the law of a particular diffusion bridge process {Xt}t∈[0,1] on Rd, d ∈ N0. This latter process is constructed such that, starting at X0 = 0, one has X1 ∼ π. Typically, the drift of the diffusion is intractable and, even if it were not, exact sampling of the associated diffusion is not possible. As a result, [10, 15] consider a stochastic Euler-Maruyama scheme that allows the development of biased estimators for expectations w.r.t. π. We show that for this methodology to achieve a mean square error of O(Ε2), for arbitrary Ε > 0, the associated cost is O(Ε−5). We then introduce an alternative approach that provides unbiased estimates of expectations w.r.t. π, that is, it does not suffer from the time discretization bias or the bias related with the approximation of the drift function. We prove that to achieve a mean square error of O(Ε2), the associated cost is, with high probability, O(Ε−2|log(Ε)|2+δ), for any δ > 0. We implement our method on several examples including Bayesian inverse problems. © 2022, The Authors. All rights reserved.

关键词： Diffusion

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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

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Ferroelectric transistors based on shear-transformation-mediated rhombohedral-stacked molybdenum disulfide

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Nature Electronics 2024年第1期7卷 29-38页

作者： Yang, Tilo H. Liang, Bor-Wei Hu, Hsiang-Chi Chen, Fu-Xiang Ho, Sheng-Zhu Chang, Wen-Hao Yang, Liu Lo, Han-Chieh Kuo, Tzu-Hao Chen, Jyun-Hong Lin, Po-Yen Simbulan, Kristan Bryan Luo, Zhao-Feng Chang, Alice Chinghsuan Kuo, Yi-Hao Ku, Yu-Seng Chen, Yi-Cheng Huang, You-Jia Chang, Yu-Chen Chiang, Yu-Fan Lu, Ting-Hua Lee, Min-Hung Li, Kai-Shin Wu, Menghao Chen, Yi-Chun Lin, Chun-Liang Lan, Yann-Wen Department of Physics National Taiwan Normal University Taipei Taiwan Taiwan Semiconductor Research Institute National Applied Research Laboratories Hsinchu Taiwan Department of Electrophysics National Yang Ming Chiao Tung University Hsinchu Taiwan Department of Physics National Cheng Kung University Tainan Taiwan School of Physics Huazhong University of Science and Technology Wuhan China Institute of Cellular and Organismic Biology Academia Sinica Taipei Taiwan Department of Mathematics and Physics University of Santo Tomas Manila Philippines Program for Semiconductor Devices Materials and Hetero-integration Graduate School of Advanced Technology National Taiwan University Taipei Taiwan Hsinchu Taiwan Department of Physics National Taiwan University Taipei Taiwan Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology CambridgeMA United States

To develop low-power, non-volatile computing-in-memory device using ferroelectric transistor technologies, ferroelectric channel materials with scaled thicknesses are required. Two-dimensional semiconductors, such as molybdenum disulfide (MoS2), equipped with sliding ferroelectricity could provide an answer. However, achieving switchable electric polarization in epitaxial MoS2 remains challenging due to the absence of mobile domain boundaries. Here we show that polarity-switchable epitaxial rhombohedral-stacked (3R) MoS2 can be used as a ferroelectric channel in ferroelectric memory transistors. We show that a shear transformation can spontaneously occur in 3R MoS2 epilayers, producing heterostructures with stable ferroelectric domains embedded in a highly dislocated and unstable non-ferroelectric matrix. This diffusionless phase transformation process produces mobile screw dislocations that enable collective polarity control of 3R MoS2 via an electric field. Polarization–electric-field measurements reveal a switching field of 0.036 V nm−1 for shear-transformed 3R MoS2. Our sliding ferroelectric transistors are non-volatile memory units with thicknesses of only two atomic layers and exhibit an average memory window of 7 V with an applied voltage of 10 V, retention times greater than 104 seconds and endurance greater than 104 cycles. © 2023, The Author(s), under exclusive licence to Springer Nature Limited.

关键词： Molybdenum disulfide

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A Big Data-Based Target Cost Management System

A Big Data-Based Target Cost Management System

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International Symposium on computer, Consumer and Control (IS3C)

作者： Yin-Chen Lin Jyun-Jie Wang Chi-Yuan Lin Sheng-Chih Yang Ph. D. Program Prospective Technology of Electrical Engineering and Computer Science National Chin-Yi University of Technology Taichung Taiwan National Chin-Yi University of Technology Taichung Taiwan

ISBN: (数字)9781728193625

ISBN: (纸本)9781728193632

This study proposed a novel big data-based target cost management (TCM) system that automatically calculates the cost table. MATLAB, Python, and Excel were used to realize the system. TCM can be performed using the content of the calculated cost table. The system is suitable for managing catering inventory. This study presented the theoretical model of the proposed system and revealed that the system outperformed the traditional cost table implementation.

关键词： Procurement Databases programming Synchronization Mathematical model Python Matlab

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