检索结果-内蒙古大学图书馆

arXiv 2023年

作者： Volpe, Giovanni Wählby, Carolina Tian, Lei Hecht, Michael Yakimovich, Artur Monakhova, Kristina Waller, Laura Sbalzarini, Ivo F. Metzler, Christopher A. Xie, Mingyang Zhang, Kevin Lenton, Isaac C.D. Rubinsztein-Dunlop, Halina Brunner, Daniel Bai, Bijie Ozcan, Aydogan Midtvedt, Daniel Wang, Hao Sladoje, Nataša Lindblad, Joakim Smith, Jason T. Ochoa, Marien Barroso, Margarida Intes, Xavier Qiu, Tong Yu, Li-Yu You, Sixian Liu, Yongtao Ziatdinov, Maxim A. Kalinin, Sergei V. Sheridan, Arlo Manor, Uri Nehme, Elias Goldenberg, Ofri Shechtman, Yoav Moberg, Henrik K. Langhammer, Christoph Špačková, Barbora Helgadottir, Saga Midtvedt, Benjamin Argun, Aykut Thalheim, Tobias Cichos, Frank Bo, Stefano Hubatsch, Lars Pineda, Jesus Manzo, Carlo Bachimanchi, Harshith Selander, Erik Homs-Corbera, Antoni Fränzl, Martin de Haan, Kevin Rivenson, Yair Korczak, Zofia Adiels, Caroline Beck Mijalkov, Mite Veréb, Dániel Chang, Yu-Wei Pereira, Joana B. Matuszewski, Damian Kylberg, Gustaf Sintorn, Ida-Maria Caicedo, Juan C. Cimini, Beth A. Bell, Muyinatu Lediju A. Saraiva, Bruno M. Jacquemet, Guillaume Henriques, Ricardo Ouyang, Wei Le, Trang Gómez-De-Mariscal, Estibaliz Sage, Daniel Muñoz-Barrutia, Arrate Lindqvist, Ebba Josefson Bergman, Johanna Department of Physics University of Gothenburg Gothenburg41296 Sweden Dept. IT and SciLifeLab Uppsala University Sweden Department of Electrical and Computer Engineering Boston University BostonMA02215 United States Department of Biomedical Engineering Boston University BostonMA02215 United States Görlitz Germany Department of Renal Medicine Division of Medicine University College London Royal Free Hospital Campus London United Kingdom Artificial Intelligence for Life Sciences CIC Dorset United Kingdom Roche Pharma International Informatics Roche Diagnostics GmbH Mannheim Germany Department of Electrical Engineering and Computer Sciences UC Berkeley United States Technische Universität Dresden Faculty of Computer Science Dresden Germany Max Planck Institute of Molecular Cell Biology and Genetics Center for Systems Biology Dresden Dresden Germany University of Maryland College Park United States Klosterneuburg3400 Austria School of Mathematics and Physics The University of Queensland Brisbane4072 Australia Australian Research Council Centre of Excellence for Engineered Quantum Systems The University of Queensland Brisbane4072 Australia Département d’Optique P. M. Duffieux Institut FEMTO-ST Université Franche-Comté CNRS UMR 6174 Besançon France Department of Electrical and Computer Engineering University of California Los Angeles Los AngelesCA United States Department of Information Technology Uppsala University Sweden Department of Biomedical Engineering Rensselaer Polytechnic Institute TroyNY12180 United States Elephas 1 Erdman Pl. Madison53705 United States University of Wisconsin–Madison Department of Medical Physics MadisonWI53705 United States Department of Molecular and Cellular Physiology Albany Medical College AlbanyNY12208 United States Research Laboratory of Electronics Electrical Engineering and Computer Science Massachusetts Institute of Technology BostonMA United States Center for Nanophase Materials Sciences Oak R

Through digital imaging, microscopy has evolved from primarily being a means for visual observation of life at the micro- and nano-scale, to a quantitative tool with ever-increasing resolution and throughput. Artificial intelligence, deep neural networks, and machine learning are all niche terms describing computational methods that have gained a pivotal role in microscopy-based research over the past decade. This Roadmap is written collectively by prominent researchers and encompasses selected aspects of how machine learning is applied to microscopy image data, with the aim of gaining scientific knowledge by improved image quality, automated detection, segmentation, classification and tracking of objects, and efficient merging of information from multiple imaging modalities. We aim to give the reader an overview of the key developments and an understanding of possibilities and limitations of machine learning for microscopy. It will be of interest to a wide cross-disciplinary audience in the physical sciences and life sciences. Copyright © 2023, The Authors. All rights reserved.

关键词： Image enhancement

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The state-of-the-art in Cardiac MRI Reconstruction: Results of the CMRxRecon Challenge in MICCAI 2023

arXiv

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arXiv 2024年

作者： Lyu, Jun Qin, Chen Wang, Shuo Wang, Fanwen Li, Yan Wang, Zi Guo, Kunyuan Ouyang, Cheng Tänzer, Michael Liu, Meng Sun, Longyu Sun, Mengting Li, Qin Shi, Zhang Hua, Sha Li, Hao Chen, Zhensen Zhang, Zhenlin Xin, Bingyu Metaxas, Dimitris N. Yiasemis, George Teuwen, Jonas Zhang, Liping Chen, Weitian Pang, Yanwei Liu, Xiaohan Razumov, Artem Dylov, Dmitry V. Dou, Quan Yan, Kang Xue, Yuyang Du, Yuning Dietlmeier, Julia Garcia-Cabrera, Carles Hemidi, Ziad Al-Haj Vogt, Nora Xu, Ziqiang Zhang, Yajing Chu, Ying-Hua Chen, Weibo Bai, Wenjia Zhuang, Xiahai Qin, Jing Wu, Lianmin Yang, Guang Qu, Xiaobo Wang, He Wang, Chengyan Psychiatry Neuroimaging Laboratory Brigham and Women’s Hospital Harvard Medical School 399 Revolution Drive BostonMA02215 United States Department of Electrical and Electronic Engineering & I-X Imperial College London United Kingdom Digital Medical Research Center School of Basic Medical Sciences Fudan University Shanghai China Department of Bioengineering & I-X Imperial College London LondonW12 7SL United Kingdom Cardiovascular Magnetic Resonance Unit Royal Brompton Hospital Guy’s and St Thomas’ NHS Foundation Trust LondonSW3 6NP United Kingdom Department of Radiology Ruijin Hospital Shanghai Jiao Tong University School of Medicine Shanghai China Department of Electronic Science Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance National Institute for Data Science in Health and Medicine Institute of Artificial Intelligence Xiamen University Xiamen361102 China Department of Computing Department of Brain Sciences Imperial College London LondonSW7 2AZ United Kingdom Human Phenome Institute Fudan University 825 Zhangheng Road Pudong New District Shanghai201203 China Department of Radiology Zhongshan Hospital Fudan University Shanghai China Department of Cardiovascular Medicine Ruijin Hospital Lu Wan Branch Shanghai Jiao Tong University School of Medicine Shanghai China Institute of Science and Technology for Brain-Inspired Intelligence Fudan University Shanghai200433 China Department of Computer Science Rutgers University PiscatawayNJ08854 United States AI for Oncology Netherlands Cancer Institute Plesmanlaan 121 Amsterdam1066 CX Netherlands Department of Imaging and Interventional Radiology The Chinese University of Hong Kong Hong Kong TJK-BIIT Lab School of Electrical and Information Engineering Tianjin University Tianjin300072 China Skolkovo Institute Of Science And Technology Center for Artificial Intelligence Technology 30/1 Bolshoy blvd. Moscow121205 Russia Department of Biomedical Engineering University of Virginia

Cardiac magnetic resonance imaging (MRI) provides detailed and quantitative evaluation of the heart’s structure, function, and tissue characteristics with high-resolution spatial-temporal imaging. However, its slow imaging speed and motion artifacts are notable limitations. Undersampling reconstruction, especially data-driven algorithms, has emerged as a promising solution to accelerate scans and enhance imaging performance using highly under-sampled data. Nevertheless, the scarcity of publicly available cardiac k-space datasets and evaluation platform hinder the development of data-driven reconstruction algorithms. To address this issue, we organized the Cardiac MRI Reconstruction Challenge (CMRxRecon) in 2023, in collaboration with the 26th International Conference on medical Image Computing and Computer-Assisted Intervention (MICCAI). CMRxRecon presented an extensive k-space dataset comprising cine and mapping raw data, accompanied by detailed annotations of cardiac anatomical structures. With overwhelming participation, the challenge attracted more than 285 teams and over 600 participants. Among them, 22 teams successfully submitted Docker containers for the testing phase, with 7 teams submitted for both cine and mapping tasks. All teams use deep learning based approaches, indicating that deep learning has predominately become a promising solution for the problem. The first-place winner of both tasks utilizes the E2E-VarNet architecture as backbones. In contrast, U-Net is still the most popular backbone for both multi-coil and single-coil reconstructions. This paper provides a comprehensive overview of the challenge design, presents a summary of the submitted results, reviews the employed methods, and offers an in-depth discussion that aims to inspire future advancements in cardiac MRI reconstruction models. The summary emphasizes the effective strategies observed in Cardiac MRI reconstruction, including backbone architecture, loss function, pre-processing techn

关键词： Mapping

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Author Correction: Single-cell transcriptomics uncovers EGFR signaling-mediated gastric progenitor cell differentiation in stomach homeostasis

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Nature communications 2023年第1期14卷 6540页

作者： Hitomi Takada Yohei Sasagawa Mika Yoshimura Kaori Tanaka Yoshimi Iwayama Tetsutaro Hayashi Ayako Isomura-Matoba Itoshi Nikaido Akira Kurisaki Laboratory of Stem Cell Technologies Graduate School of Science and Technology Nara Institute of Science and Technology Takayama-cho Ikoma Nara Japan. Laboratory for Bioinformatics Research RIKEN Center for Biosystems Dynamics Research Wako Saitama Japan. Department of Functional Genome Informatics Biological Data Science Medical Research Institute Tokyo Medical and Dental University Bunkyo Tokyo Japan. Laboratory for Bioinformatics Research RIKEN Center for Biosystems Dynamics Research Wako Saitama Japan. itoshi.nikaido@riken.jp. Department of Functional Genome Informatics Biological Data Science Medical Research Institute Tokyo Medical and Dental University Bunkyo Tokyo Japan. itoshi.nikaido@riken.jp. Master's/Doctoral Program in Life Science Innovation (Bioinformatics) Degree Programs in Systems and Information Engineering Graduate School of Science and Technology University of Tsukuba Tsukuba Ibaraki Japan. itoshi.nikaido@riken.jp. Laboratory of Stem Cell Technologies Graduate School of Science and Technology Nara Institute of Science and Technology Takayama-cho Ikoma Nara Japan. akikuri@bs.naist.jp.

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A registration-aided domain adaptation network for 3D Point cloud based place recognition

arXiv

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arXiv 2020年

作者： Qiao, Zhijian Hu, Hanjiang Shi, Weiang Chen, Siyuan Liu, Zhe Wang, Hesheng Department of Automation Insititue of Medical Robotics Key Laboratory of System Control and Information Processing of Ministry of Education Key Laboratory of Marine Intelligent Equipment and System of Ministry of Education Shanghai Jiao Tong University Shanghai200240 China Beijing Advanced Innovation Center for Intelligent Robots and Systems Beijing Institute of Technology China Department of Mechanical Engineering Carnegie Mellon University United States Department of Computer Science and Technology University of Cambridge United Kingdom

In the field of large-scale SLAM for autonomous driving and mobile robotics, 3D point cloud based place recognition has aroused significant research interest due to its robustness to changing environments with drastic daytime and weather variance. However, it is time-consuming and effort-costly to obtain high-quality point cloud data for place recognition model training and ground truth for registration in the real world. To this end, a novel registration-aided 3D domain adaptation network for point cloud based place recognition is proposed. A structure-aware registration network is introduced to help to learn features with geometric information and a 6-DoFs pose between two point clouds with partial overlap can be estimated. The model is trained through a synthetic virtual LiDAR dataset through GTA-V with diverse weather and daytime conditions and domain adaptation is implemented to the real-world domain by aligning the global features. Our results outperform state-of-the-art 3D place recognition baselines or achieve comparable on the real-world Oxford RobotCar dataset with the visualization of registration on the virtual dataset. Copyright © 2020, The Authors. All rights reserved.

关键词： Three dimensional computer graphics

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Benchmark problems for transcranial ultrasound simulation: Intercomparison of compressional wave models

arXiv

引用

arXiv 2022年

作者： Aubry, Jean-Francois Bates, Oscar Boehm, Christian Pauly, Kim Butts Christensen, Douglas Cueto, Carlos Gélat, Pierre Guasch, Lluis Jaros, Jiri Jing, Yun Jones, Rebecca Li, Ningrui Marty, Patrick Montanaro, Hazael Neufeld, Esra Pichardo, Samuel Pinton, Gianmarco Pulkkinen, Aki Stanziola, Antonio Thielscher, Axel Treeby, Bradley Van't Wout, Elwin Physics for Medicine Paris INSERM U1273 ESPCI Paris PSL University CNRS UMR 8063 France Department of Bioengineering Imperial College London Exhibition Road LondonSW7 2AZ United Kingdom Institute of Geophysics ETH Zürich Sonneggstrasse 5 Zürich8092 Switzerland Department of Radiology Stanford University StanfordCA United States Department of Biomedical Engineering Department of Electrical and Computer Engineering University of Utah United States Department of Surgical Biotechnology Division of Surgery and Interventional Science University College London LondonNW3 2PF United Kingdom Earth Science and Engineering Department Imperial College London London United Kingdom Centre of Excellence IT4Innovations Faculty of Information Technology Brno University of Technology Bozetechova 2 Brno612 00 Czech Republic Graduate Program in Acoustics The Pennsylvania State University University Park PA16802 United States Joint Department of Biomedical Engineering University of North Carolina at Chapel Hill North Carolina State University NC United States Department of Electrical Engineering Stanford University StanfordCA United States Zurich Switzerland Laboratory for Acoustics / Noise control Empa Swiss Federal Laboratories for Materials Science and Technology Dubendorf Switzerland Zurich Switzerland Radiology and Clinical Neurosciences Departments Cumming School of Medicine University of Calgary Canada Department of Applied Physics University of Eastern Finland Kuopio70211 Finland Department of Medical Physics and Biomedical Engineering University College London Gower Street LondonWC1E 6BT United Kingdom Technical University of Denmark Denmark Danish Research Center for Magnetic Resonance Copenhagen University Hospital Hvidovre Denmark Institute for Mathematical and Computational Engineering School of Engineering and Faculty of Mathematics Pontificia Universidad Catolica de Chile Santiago Chile

Computational models of acoustic wave propagation are frequently used in transcranial ultrasound therapy, for example, to calculate the intracranial pressure field or to calculate phase delays to correct for skull distortions. To allow intercomparison between the different modeling tools and techniques used by the community, an international working group was convened to formulate a set of numerical benchmarks. Here, these benchmarks are presented, along with intercomparison results. Nine different benchmarks of increasing geometric complexity are defined. These include a single-layer planar bone immersed in water, a multi-layer bone, and a whole skull. Two transducer configurations are considered (a focused bowl and a plane piston), giving a total of 18 permutations of the benchmarks. Eleven different modeling tools are used to compute the benchmark results. The models span a wide range of numerical techniques, including the finite-difference time-domain method, angular-spectrum method, pseudospectral method, boundary-element method, and spectral-element method. Good agreement is found between the models, particularly for the position, size, and magnitude of the acoustic focus within the skull. When comparing results for each model with every other model in a cross comparison, the median values for each benchmark for the difference in focal pressure and position are less than 10% and 1 mm, respectively. The benchmark definitions, model results, and intercomparison codes are freely available to facilitate further comparisons. Copyright © 2022, The Authors. All rights reserved.

关键词： Bone

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Advanced NOMA Assisted Semi-Grant-Free Transmission Schemes for Randomly Distributed Users

arXiv

引用

arXiv 2020年

作者： Lu, Huabing Xie, Xianzhong Shi, Zhaoyuan Lei, Hongjiang Yang, Helin Cai, Jun The Key Laboratory of Intelligent Control and Optimization for Industrial Equipment Ministry of Education Dalian University of Technology Dalian116024 China The School of Computer Science and Technology Chongqing University of Posts and Telecommunications Chongqing400065 China The Key Laboratory of Intelligent Perception and Computing of Anhui Province Anqing Normal University Anqing246011 China The School of Communication and Information Engineering Chongqing University of Posts and Telecommunications Chongqing400065 China The Department of Information and Communication Engineering School of Informatics Xiamen University Xiamen361005 China Department of Electrical and Computer Engineering Concordia University MontrealQCH3G 1M8 Canada

Non-orthogonal multiple access (NOMA) assisted semi-grant-free (SGF) transmission has recently received significant research attention due to its outstanding ability of serving grant-free (GF) users with grant-based (GB) users' spectrum, which greatly improves the spectrum efficiency and effectively relieves the massive access problem of 5G and beyond networks. In this paper, we first study the outage performance of the greedy best user scheduling SGF scheme (BU-SGF) by considering the impacts of Rayleigh fading, path loss, and random user locations. In order to tackle the admission fairness problem of the BU-SGF scheme, we propose a fair SGF scheme by applying cumulative distribution function (CDF)-based scheduling (CS-SGF), in which the GF user with the best channel relative to its own statistics will be admitted. Moreover, by employing the theories of order statistics and stochastic geometry, the outage performances of both BU-SGF and CS-SGF schemes are analyzed. Theoretical results show that both schemes can achieve full diversity orders only when the served users' data rate is capped, which severely limits the rate performance of SGF schemes. To further address this issue, we propose a distributed power control strategy to relax such data rate constraint, and derive analytical expressions of the two schemes' outage performances under this strategy. Finally, simulation results validate the fairness performance of the proposed CS-SGF scheme, the effectiveness of the power control strategy, and the accuracy of the theoretical analyses. Copyright © 2020, The Authors. All rights reserved.

关键词： Spectrum efficiency

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Anchor-based spatio-temporal attention 3D convolutional networks for dynamic 3D point cloud sequences

arXiv

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arXiv 2020年

作者： Wang, Guangming Chen, Muyao Liu, Hanwen Yang, Yehui Liu, Zhe Wang, Hesheng The Department of Automation Institute of Medical Robotics Key Laboratory of System Control and Information Processing Ministry of Education Key Laboratory of Marine Intelligent Equipment System of Ministry of Education Shanghai Jiao Tong University Shanghai200240 China Beijing Advanced Innovation Center for Intelligent Robots and Systems Beijing Institute of Technology China The Department of Computer Science and Engineering Shanghai Jiao Tong University Shanghai200240 China The Department of Computer Science and Technology University of Cambridge

With the rapid development of measurwement technology, LiDAR and depth cameras are widely used in the perception of the 3D environment. Recent learning based methods for robot perception most focus on the image or video, but deep learning methods for dynamic 3D point cloud sequences are underexplored. Therefore, developing efficient and accurate perception method compatible with these advanced instruments is pivotal to autonomous driving and service robots. An Anchor-based Spatio-Temporal Attention 3D Convolution operation (ASTA3DConv) is proposed in this paper to process dynamic 3D point cloud sequences. The proposed convolution operation builds a regular receptive field around each point by setting several virtual anchors around each point. The features of neighborhood points are firstly aggregated to each anchor based on the spatio-temporal attention mechanism. Then, anchor-based 3D convolution is adopted to aggregate these anchors' features to the core points. The proposed method makes better use of the structured information within the local region and learns spatio-temporal embedding features from dynamic 3D point cloud sequences. Anchor-based Spatio-Temporal Attention 3D Convolutional Neural Networks (ASTA3DCNNs) are built for classification and segmentation tasks based on the proposed ASTA3DConv and evaluated on action recognition and semantic segmentation tasks. The experiments and ablation studies on MSRAction3D and Synthia datasets demonstrate the superior performance and effectiveness of our method for dynamic 3D point cloud sequences. Our method achieves the state-of-the-art performance among the methods with dynamic 3D point cloud sequences as input on MSRAction3D and Synthia datasets. Copyright © 2020, The Authors. All rights reserved.

关键词： Embeddings

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Direct observation of layer-stacking and oriented wrinkles in multilayer hexagonal boron nitride

arXiv

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arXiv 2021年

作者： Chen, Lingxiu Elibol, Kenan Cai, Haifang Jiang, Chengxin Shi, Wenhao Chen, Chen Wang, Hui Shan Wang, Xiujun Mu, Xiaojing Li, Chen Watanabe, Kenji Taniguchi, Takashi Guo, Yufeng Meyer, Jannik C. Wang, Haomin State Key Laboratory of Functional Materials for Informatics Shanghai Institute of Microsystem and Information Technology Chinese Academy of Sciences Shanghai200050 China Center of Materials Science and Optoelectronics Engineering University of Chinese Academy of Sciences Beijing100049 China School of Materials Science and Physics China University of Mining and Technology Xuzhou221116 China Faculty of Physics University of Vienna Vienna1090 Austria School of Chemistry Trinity College Dublin Dublin 2 Ireland State Key Laboratory of Mechanics and Control of Mechanical Structures MOE Key Laboratory for Intelligent Nano Materials and Devices College of Aerospace Engineering Nanjing University of Aeronautics and Astronautics Nanjing210016 China School of Physical Science and Technology ShanghaiTech University Shanghai201210 China Key Laboratory of Optoelectronic Technology Systems Ministry of Education International R & D Center of Micro-Nano Systems New Materials Technology Chongqing University Chongqing400044 China University of Antwerp Antwerp2020 Belgium National Institute for Materials Science Tsukuba305-0044 Japan Institute for Applied Physics and Natural Medical Sciences Institute University of Tübingen Tübingen72076 Germany

Hexagonal boron nitride (h-BN) has long been recognized as an ideal substrate for electronic devices due to its dangling-bond-free surface, insulating nature and thermal/chemical stability. These properties of the h-BN multilayer are mainly determined by its lattice structure. Therefore, to analyse the lattice structure and orientation of h-BN crystals becomes important. Here, the stacking order and wrinkles of h-BN are investigated by transmission electron microscopy (TEM). It is experimentally confirmed that the layers in the h-BN flakes are arranged in the AA′ stacking. The wrinkles in a form of threefold network throughout the h-BN crystal are oriented along the armchair direction, and their formation mechanism was further explored by molecular dynamics simulations. Our findings provide a deep insight about the microstructure of h-BN and shed light on the structural design/electronic modulations of two-dimensional crystals. © 2021, CC BY-NC-ND.

关键词： III-V semiconductors

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Remote real-time wastewater surveillance by the optical sensor supported by machine learning

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Sensors and Actuators Reports 2025年 10卷

作者： Małgorzata Szczerska Kacper Cierpiak Monika Kosowska Paweł Wityk Sebastián García-Galán Patryk Sokołowski Sylwia Fudala-Książek Michał T. Tomczak Bei Ye Aneta Łuczkiewicz Department of Metrology and Optoelectronics Faculty of Electronics Telecommunications and Informatics Gdańsk University of Technology 11/12 Narutowicza Street 80-233 Gdansk Poland Faculty of Telecommunications Computer Science and Electrical Engineering Bydgoszcz University of Science and Technology Al. Prof. S. Kaliskiego 7 85-796 Bydgoszcz Poland Department of Biotechnology and Microbiology Faculty of Chemistry Gdańsk University of Technology 11/12 Narutowicza Street 80-233 Gdansk Poland Department of Biopharmaceutics and Pharmacodynamics Medical University of Gdańsk Hallera 107 Pharmacy Faculty Gdańsk Poland Telecommunications Engineering Department Linares Higher Polytechnic School Jaén University Avenida de la Universidad S/N 23700 Linares Jaén Spain Department of Water and Wastewater Technology Faculty of Civil and Environmental Engineering Gdańsk University of Technology 11/12 Narutowicza Street 80-233 Gdańsk Poland Faculty of Management and Economics Gdańsk University of Technology 11/12 Narutowicza Street 80-233 Gdańsk Poland Shenzhen Key Laboratory of Ecological Remediation and Carbon Sequestration Environmental Protection Key Laboratory of Microorganism Application and Risk Control Institute of Environment and Ecology Shenzhen International Graduate School Tsinghua University Shenzhen 518055 PR China

In this study, a remote monitoring sewage system based on optical method is presented for the first time. The built-in wastewater surveillance system can perform autonomous monitoring with no requirement of sample collection and its transport to the laboratory. The measurement results can be obtained in real time, the work operation allows continuous or on-demand mode. The study includes design, development and application of a biofunctionalized fiber-optic sensor, as well as engaging machine learning algorithms for measured signals classification. The validated SARS-CoV-2 antibodies sensor has a measurement range of 10 −12 mg/mL to 10 −1 mg/mL. Known concentrations of Immunoglobulin G (IgG) from 10 −6 mg/mL to 10 −1 mg/mL were added to the tested wastewater samples and then detected by the prepared optical probe. The data obtained were then processed and classified by traditional method and selected machine learning algorithms; the results obtained for the KNeighbors algorithm are Balanced Accuracy of 92.97 % and F1-score of 94.19 %. This study is of significance to establish a system that can effectively monitor the outbreak of potential infections in society.

关键词： Remote wastewater surveillance Real-time monitoring SARS-CoV-2 Optical sensors Fiber optic sensor Machine learning

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BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets

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Nature methods 2023年第6期20卷 824-835页

作者： Linus Manubens-Gil Zhi Zhou Hanbo Chen Arvind Ramanathan Xiaoxiao Liu Yufeng Liu Alessandro Bria Todd Gillette Zongcai Ruan Jian Yang Miroslav Radojević Ting Zhao Li Cheng Lei Qu Siqi Liu Kristofer E Bouchard Lin Gu Weidong Cai Shuiwang Ji Badrinath Roysam Ching-Wei Wang Hongchuan Yu Amos Sironi Daniel Maxim Iascone Jie Zhou Erhan Bas Eduardo Conde-Sousa Paulo Aguiar Xiang Li Yujie Li Sumit Nanda Yuan Wang Leila Muresan Pascal Fua Bing Ye Hai-Yan He Jochen F Staiger Manuel Peter Daniel N Cox Michel Simonneau Marcel Oberlaender Gregory Jefferis Kei Ito Paloma Gonzalez-Bellido Jinhyun Kim Edwin Rubel Hollis T Cline Hongkui Zeng Aljoscha Nern Ann-Shyn Chiang Jianhua Yao Jane Roskams Rick Livesey Janine Stevens Tianming Liu Chinh Dang Yike Guo Ning Zhong Georgia Tourassi Sean Hill Michael Hawrylycz Christof Koch Erik Meijering Giorgio A Ascoli Hanchuan Peng Institute for Brain and Intelligence Southeast University Nanjing China. Microsoft Corporation Redmond WA USA. Tencent AI Lab Bellevue WA USA. Computing Environment and Life Sciences Directorate Argonne National Laboratory Lemont IL USA. Kaya Medical Seattle WA USA. University of Cassino and Southern Lazio Cassino Italy. Center for Neural Informatics Structures and Plasticity Krasnow Institute for Advanced Study George Mason University Fairfax VA USA. Faculty of Information Technology Beijing University of Technology Beijing China. Beijing International Collaboration Base on Brain Informatics and Wisdom Services Beijing China. Nuctech Netherlands Rotterdam the Netherlands. Janelia Research Campus Howard Hughes Medical Institute Ashburn VA USA. Department of Electrical and Computer Engineering University of Alberta Edmonton Alberta Canada. Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing Anhui University Hefei China. Paige AI New York NY USA. Scientific Data Division and Biological Systems and Engineering Division Lawrence Berkeley National Lab Berkeley CA USA. Helen Wills Neuroscience Institute and Redwood Center for Theoretical Neuroscience UC Berkeley Berkeley CA USA. RIKEN AIP Tokyo Japan. Research Center for Advanced Science and Technology (RCAST) The University of Tokyo Tokyo Japan. School of Computer Science University of Sydney Sydney New South Wales Australia. Texas A&M University College Station TX USA. Cullen College of Engineering University of Houston Houston TX USA. Graduate Institute of Biomedical Engineering National Taiwan University of Science and Technology Taipei Taiwan. National Centre for Computer Animation Bournemouth University Poole UK. PROPHESEE Paris France. Department of Neuroscience Columbia University New York NY USA. Mortimer B. Zuckerman Mind Brain Behavior Institute Columbia University New York NY USA. Department of Computer Science Northern Illinois Universit

BigNeuron is an open community bench-testing platform with the goal of setting open standards for accurate and fast automatic neuron tracing. We gathered a diverse set of image volumes across several species that is representative of the data obtained in many neuroscience laboratories interested in neuron tracing. Here, we report generated gold standard manual annotations for a subset of the available imaging datasets and quantified tracing quality for 35 automatic tracing algorithms. The goal of generating such a hand-curated diverse dataset is to advance the development of tracing algorithms and enable generalizable benchmarking. Together with image quality features, we pooled the data in an interactive web application that enables users and developers to perform principal component analysis, t-distributed stochastic neighbor embedding, correlation and clustering, visualization of imaging and tracing data, and benchmarking of automatic tracing algorithms in user-defined data subsets. The image quality metrics explain most of the variance in the data, followed by neuromorphological features related to neuron size. We observed that diverse algorithms can provide complementary information to obtain accurate results and developed a method to iteratively combine methods and generate consensus reconstructions. The consensus trees obtained provide estimates of the neuron structure ground truth that typically outperform single algorithms in noisy datasets. However, specific algorithms may outperform the consensus tree strategy in specific imaging conditions. Finally, to aid users in predicting the most accurate automatic tracing results without manual annotations for comparison, we used support vector machine regression to predict reconstruction quality given an image volume and a set of automatic tracings.

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