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CholecTriplet2021: A benchmark challenge for surgical action triplet recognition

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arXiv 2022年

作者： Nwoye, Chinedu Innocent Alapatt, Deepak Yu, Tong Vardazaryan, Armine Xia, Fangfang Zhao, Zixuan Xia, Tong Jia, Fucang Yang, Yuxuan Wang, Hao Yu, Derong Zheng, Guoyan Duan, Xiaotian Getty, Neil Sanchez-Matilla, Ricardo Robu, Maria Zhang, Li Chen, Huabin Wang, Jiacheng Wang, Liansheng Zhang, Bokai Gerats, Beerend Raviteja, Sista Sathish, Rachana Tao, Rong Kondo, Satoshi Pang, Winnie Ren, Hongliang Abbing, Julian Ronald Sarhan, Mohammad Hasan Bodenstedt, Sebastian Bhasker, Nithya Oliveira, Bruno Torres, Helena R. Ling, Li Gaida, Finn Czempiel, Tobias Vilaça, João L. Morais, Pedro Fonseca, Jaime Egging, Ruby Mae Wijma, Inge Nicole Qian, Chen Bian, Guibin Li, Zhen Balasubramanian, Velmurugan Sheet, Debdoot Luengo, Imanol Zhu, Yuanbo Ding, Shuai Aschenbrenner, Jakob-Anton van der Kar, Nicolas Elini Xu, Mengya Islam, Mobarakol Seenivasan, Lalithkumar Jenke, Alexander Stoyanov, Danail Mutter, Didier Mascagni, Pietro Seeliger, Barbara Gonzalez, Cristians Padoy, Nicolas ICube University of Strasbourg CNRS France IHU Strasbourg France Department of Computer Science University of Chicago United States Lab for Medical Imaging and Digital Surgery Shenzhen Institute of Advanced Technology Chinese Academy of Sciences China School of Management Hefei University of Technology Hefei China Institue of Medical Robotics Shanghai Jiao Tong University Shanghai China Argonne National Laboratory 9700 S Cass Ave LemontIL60439 United States Digital Surgery A Medtronic Company London United Kingdom Institute of Automation Chinese Academy of Sciences China Department of Computer Science School of Informatics Xiamen University Xiamen China Johnson & Johnson Meander Medical Centre Netherlands Indian Institute of Technology Kharagpur India Muroran Institute of Technology Japan Department of Biomedical Engineering National University of Singapore Singapore Department for Translational Surgical Oncology National Center for Tumor Diseases Partner Site Dresden Germany 2Ai School of Technology IPCA Barcelos Portugal School of Medicine University of Minho Braga Portugal Algoritimi Center School of Engineering University of Minho Guimeraes Portugal Technical University of Munich Germany Department of Electronic Engineering The Chinese University of Hong Kong Hong Kong Wellcome EPSRC Center for Interventional and Surgical Science University College London United Kingdom Fondazione Policlinico Universitario Agostino Gemelli IRCCS Rome Italy University Hospital of Strasbourg France

Context-aware decision support in the operating room can foster surgical safety and efficiency by leveraging real-time feedback from surgical workflow analysis. Most existing works recognize surgical activities at a coarse-grained level, such as phases, steps or events, leaving out fine-grained interaction details about the surgical activity;yet those are needed for more helpful AI assistance in the operating room. Recognizing surgical actions as triplets of combination delivers comprehensive details about the activities taking place in surgical videos. This paper presents CholecTriplet2021: an endoscopic vision challenge organized at MICCAI 2021 for the recognition of surgical action triplets in laparoscopic videos. The challenge granted private access to the large-scale CholecT50 dataset, which is annotated with action triplet information. In this paper, we present the challenge setup and assessment of the state-of-the-art deep learning methods proposed by the participants during the challenge. A total of 4 baseline methods from the challenge organizers and 19 new deep learning algorithms by competing teams are presented to recognize surgical action triplets directly from surgical videos, achieving mean average precision (mAP) ranging from 4.2% to 38.1%. This study also analyzes the significance of the results obtained by the presented approaches, performs a thorough methodological comparison between them, in-depth result analysis, and proposes a novel ensemble method for enhanced recognition. Our analysis shows that surgical workflow analysis is not yet solved, and also highlights interesting directions for future research on fine-grained surgical activity recognition which is of utmost importance for the development of AI in surgery. © 2022, CC BY-NC-SA.

关键词： Deep learning

Reduced order modeling of diffusively coupled network systems: An optimal edge weighting approach

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arXiv 2020年

作者： Cheng, Xiaodong Yu, Lanlin Ren, Dingchao Scherpen, Jacquelien M.A. Control Systems Group Department of Electrical Engineering Eindhoven University of Technology Eindhoven5600 MB Netherlands Institute of Advanced Technology Westlake Institute for Advanced Study Westlake University Hangzhou310024 China Department of Automation University of Science and Technology of China Hefei230026 China Jan C. Willems Center for Systems and Control Engineering and Technology Institute Groningen Faculty of Science and Engineering University of Groningen Nijenborgh 4 Groningen9747 AG Netherlands

This paper studies reduced-order modeling of dynamic networks with strongly connected topology. Given a graph clustering of an original complex network, we construct a quotient graph with less number of vertices, where the edge weights are parameters to be determined. The model of the reduced network is thereby obtained with parameterized system matrices, and then an edge weighting procedure is devised, aiming to select an optimal set of edge weights that minimizes the approximation error between the original and the reduced-order network models in terms of H2-norm. The effectiveness of the proposed method is illustrated by a numerical example. Copyright © 2020, The Authors. All rights reserved.

关键词： Complex networks

Fast, accurate, and versatile data analysis platform for the quantification of molecular spatiotemporal signals

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Cell 2025年第10期188卷 2794-2809.e21页

作者： Mi, Xuelong Chen, Alex Bo-Yuan Duarte, Daniela Carey, Erin Taylor, Charlotte R. Braaker, Philipp N. Bright, Mark Almeida, Rafael G. Lim, Jing-Xuan Ruetten, Virginia M.S. Wang, Yizhi Wang, Mengfan Zhang, Weizhan Zheng, Wei Reitman, Michael E. Huang, Yongkang Wang, Xiaoyu Li, Lei Deng, HanFei Shi, Song-Hai Poskanzer, Kira E. Lyons, David A. Nimmerjahn, Axel Ahrens, Misha B. Yu, Guoqiang Bradley Department of Electrical and Computer Engineering Virginia Polytechnic Institute and State University Arlington 22203 VA United States Janelia Research Campus Howard Hughes Medical Institute Ashburn 20147 VA United States Department of Molecular and Cellular Biology Harvard University Cambridge 02138 MA United States Graduate Program in Neuroscience Harvard Medical School Boston 02115 MA United States Waitt Advanced Biophotonics Center The Salk Institute for Biological Studies La Jolla 92037 CA United States Department of Biochemistry & Biophysics University of California San Francisco San Francisco CA United States Neuroscience Graduate Program University of California San Francisco San Francisco CA United States Centre for Discovery Brain Sciences University of Edinburgh Edinburgh BioQuarter Edinburgh EH16 4SB United Kingdom Gatsby Computational Neuroscience Unit UCL London W1T 4JG United Kingdom Kavli Institute for Fundamental Neuroscience San Francisco CA United States Department of Automation Tsinghua University Beijing 100084 China IDG/McGovern Institute for Brain Research Tsinghua University Beijing 100084 China New Cornerstone Science Laboratory Tsinghua-Peking Center for Life Sciences Beijing Frontier Research Center for Biological Structure School of Life Sciences Tsinghua University Beijing 100084 China State Key Laboratory of Medical Neurobiology and MOE Frontiers Center for Brain Science Institutes of Brain Science Fudan University Shanghai 200032 China Beijing National Research Center for Information Science and Technology Beijing 100084 China

Optical recording of intricate molecular dynamics is becoming an indispensable technique for biological studies, accelerated by the development of new or improved biosensors and microscopy technology. This creates major computational challenges to extract and quantify biologically meaningful spatiotemporal patterns embedded within complex and rich data sources, many of which cannot be captured with existing methods. Here, we introduce activity quantification and analysis (AQuA2), a fast, accurate, and versatile data analysis platform built upon advanced machine-learning techniques. It decomposes complex live-imaging-based datasets into elementary signaling events, allowing accurate and unbiased quantification of molecular activities and identification of consensus functional units. We demonstrate applications across a wide range of biosensors, cell types, organs, animal models, microscopy techniques, and imaging approaches. As exemplar findings, we show how AQuA2 identified drug-dependent interactions between neurons and astroglia, as well as distinct sensorimotor signal propagation patterns in the mouse spinal cord. © 2025 The Author(s)

关键词： AQuA2 astrocytes cell interaction analysis functional units glial cells image analysis machine learning molecular spatiotemporal signals neurons time-lapse imaging

Security Lock with Effective Verification Traits

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Security Lock with Effective Verification Traits

International Conference on Computational Intelligence and Knowledge Economy (ICCIKE)

作者： Syed Umaid Ahmed Arbaz Sabir Talha Ashraf Usama Ashraf Shahbaz Sabir Usama Qureshi Department of Electrical Engineering National Center for Robotics and Automation NED University Karachi Pakistan Electrical Department NED University of Engineering and Technology Karachi Pakistan Electronic Department NED University of Engineering and Technology Karachi Pakistan Electrical Engineering NED University of Engineering and Technology Karachi Pakistan

ISBN: (数字)9781728137780

ISBN: (纸本)9781728137797

To manage and handle the issues of physical security in the modern world, there is a dire need for a multilevel security system to ensure the safety of precious belongings that could be money, military equipment or medical life-saving drugs. Security locker solution is proposed which is a multiple layer security system consisting of various levels of authentication. In most cases, only relevant persons should have access to their precious belongings. The unlocking of the box is only possible when all of the security levels are successfully cleared. The five levels of security include entering of password on interactive GUI, thumbprint, facial recognition, speech pattern recognition, and vein pattern recognition. This project is unique and effective in a sense that it incorporates five levels of security in a single prototype with the use of cost-effective equipment. Assessing our security system, it is seen that security is increased many a fold as it is near to impossible to breach all these five levels of security. The Raspberry Pi microcomputers, handling all the traits efficiently and smartly makes it easy for performing all the verification tasks. The traits used involves checking, training and verifying processes with application of machine learning operations.

关键词： Password Veins Fingerprint recognition Feature extraction Face recognition Cameras

Bayesian Optimization-guided Discovery of High-performance Methane Combustion Catalysts based on Multi-component PtPd@CeZrOx Core–Shell Nanospheres

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Angewandte Chemie 2023年第47期135卷

作者： Xilan Feng Xiangrui Gong Prof. Dapeng Liu Prof. Yang Li Prof. Ying Jiang Prof. Yu Zhang Department of Automation Science and Electrical Engineering Beihang University Beijing 100191 P. R. China Key Laboratory of Bio-inspired Smart Interfacial Science and Technology of Ministry of Education School of Chemistry Beihang University Beijing 100191 P. R. China Beijing Advanced Innovation Center for Biomedical Engineering Beihang University Beijing 100191 P. R. China

Formula regulation of multi-component catalysts by manual search is undoubtedly a time-consuming task, which has severely impeded the development efficiency of high-performance catalysts. In this work, PtPd@CeZrO x core–shell nanospheres, as a successful case study, is explicitly demonstrated how Bayesian optimization (BO) accelerates the discovery of methane combustion catalysts with the optimal formula ratio (the Pt/Pd mole ratio ranges from 1/2.33–1/9.09, and Ce/Zr from 1/0.22–1/0.35), which directly results in a lower conversion temperature (T 50 approaching to 330 °C) than ones reported hitherto. Consequently, the best sample obtained could be efficiently developed after two rounds of iterations, containing only 18 experiments in all that is far less than the common human workload via the traditional trial-and-error search for optimal compositions. Further, this BO-based machine learning strategy can be straightforward extended to serve the autonomous discovery in multi-component material systems, for other desired properties, showing promising opportunities to practical applications in future.

关键词： Bayesian Optimization Machine Learning Methane Combustion Multi-Component Catalysts

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

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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

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

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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

Efficient MedSAMs: Segment Anything in Medical Images on Laptop

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arXiv 2024年

作者： Ma, Jun Li, Feifei Kim, Sumin Asakereh, Reza Le, Bao-Hiep Nguyen-Vu, Dang-Khoa Pfefferle, Alexander Wei, Muxin Gao, Ruochen Lyu, Donghang Yang, Songxiao Purucker, Lennart Marinov, Zdravko Staring, Marius Lu, Haisheng Dao, Thuy Thanh Ye, Xincheng Li, Zhi Brugnara, Gianluca Vollmuth, Philipp Foltyn-Dumitru, Martha Cho, Jaeyoung Mahmutoglu, Mustafa Ahmed Bendszus, Martin Pflüger, Irada Rastogi, Aditya Ni, Dong Yang, Xin Zhou, Guang-Quan Wang, Kaini Heller, Nicholas Papanikolopoulos, Nikolaos Weight, Christopher Tong, Yubing Udupa, Jayaram K. Patrick, Cahill J. Wang, Yaqi Zhang, Yifan Contijoch, Francisco McVeigh, Elliot Ye, Xin He, Shucheng Haase, Robert Pinetz, Thomas Radbruch, Alexander Krause, Inga Kobler, Erich He, Jian Tang, Yucheng Yang, Haichun Huo, Yuankai Luo, Gongning Kushibar, Kaisar Amankulov, Jandos Toleshbayev, Dias Mukhamejan, Amangeldi Egger, Jan Pepe, Antonio Gsaxner, Christina Luijten, Gijs Fujita, Shohei Kikuchi, Tomohiro Wiestler, Benedikt Kirschke, Jan S. de la Rosa, Ezequiel Bolelli, Federico Lumetti, Luca Grana, Costantino Xie, Kunpeng Wu, Guomin Puladi, Behrus Martín-Isla, Carlos Lekadir, Karim Campello, Victor M. Shao, Wei Brisbane, Wayne Jiang, Hongxu Wei, Hao Yuan, Wu Li, Shuangle Zhou, Yuyin Wang, Bo AI Collaborative Centre University Health Network Department of Laboratory Medicine and Pathobiology University of Toronto Vector Institute Toronto Canada Peter Munk Cardiac Centre University Health Network Toronto Canada Toronto General Hospital Research Institute University Health Network Department of Computer Science University of Toronto University Health Network Vector Institute Toronto Canada University of Science Vietnam National University Ho Chi Minh City Viet Nam Institute of Computer Science University of Freiburg Freiburg Germany School of Medicine and Health Harbin Institute of Technology Harbin China Division of Image Processing Department of Radiology Leiden University Medical Center Leiden Netherlands Department of System and Control Engineering School of Engineering Institute of Science Tokyo Formerly Tokyo Institute of Technology Tokyo Japan Institute for Anthropomatics and Robotics Karlsruhe Institute of Technology Karlsruhe Germany School of Information and Communication Engineering University of Electronic Science and Technology of China Chengdu China School of Electrical Engineering and Computer Science University of Queensland Brisbane Australia School of Cyberspace Hangzhou Dianzi University Hangzhou China Division for Computational Radiology and Clinical AI The Department of Neuroradiology University Hospital Bonn Germany Division for Computational Radiology and Clinical AI The Department of Neuroradiology University Hospital Bonn Germany Department of Neuroradiology Heidelberg University Hospital Heidelberg Germany Division for Computational Radiology and Clinical AI Department of Neuroradiology University Hospital Bonn Germany School of Biomedical Engineering Shenzhen University Shenzhen China School of Biological Science and Medical Engineering Southeast University Nanjing China Department of Urology Cleveland Clinic Cleveland United States Department of Computer Science University of Minnesota Minneapolis United St

Promptable segmentation foundation models have emerged as a transformative approach to addressing the diverse needs in medical images, but most existing models require expensive computing, posing a big barrier to their adoption in clinical practice. In this work, we organized the first international competition dedicated to promptable medical image segmentation, featuring a large-scale dataset spanning nine common imaging modalities from over 20 different institutions. The top teams developed lightweight segmentation foundation models and implemented an efficient inference pipeline that substantially reduced computational requirements while maintaining state-of-the-art segmentation accuracy. Moreover, the post-challenge phase advanced the algorithms through the design of performance booster and reproducibility tasks, resulting in improved algorithms and validated reproducibility of the winning solution. Furthermore, the best-performing algorithms have been incorporated into the open-source software with a user-friendly interface to facilitate clinical adoption. The data and code are publicly available to foster the further development of medical image segmentation foundation models and pave the way for impactful real-world applications. © 2024, CC BY-NC-SA.

关键词： Open source software

Cell Nanomechanics Based on Dielectric Elastomer Actuator Device

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Nano-Micro Letters 2019年第4期11卷 690-708页

作者： Zhichao Li Chao Gao Sisi Fan Jiang Zou Guoying Gu Mingdong Dong Jie Song Institute of Nano Biomedicine and Engineering Department of Instrument Science and EngineeringSchool of Electronic Information and Electrical EngineeringShanghai Jiao Tong UniversityShanghai 200240People’s Republic of China Shanghai Engineering Research Center of Advanced Dental Technology and Materials Shanghai Ninth People’s HospitalShanghai Jiao Tong UniversityShanghai 200240People’s Republic of China Robotics Institute School of Mechanical EngineeringShanghai Jiao Tong UniversityShanghai 200240People’s Republic of China State Key Laboratory of Mechanical System and Vibration Shanghai Jiao Tong UniversityShanghai 200240People’s Republic of China Interdisciplinary Nanoscience Center(iNANO) Aarhus UniversityAarhus 8000Denmark

As a frontier of biology,mechanobiology plays an important role in tissue and biomedical *** is a common sense that mechanical cues under extracellular microenvironment affect a lot in regulating the behaviors of cells such as proliferation and gene expression,*** such an interdisciplinary field,engineering methods like the pneumatic and motor-driven devices have been employed for ***,such techniques usually rely on complex structures,which cost much but not so easy to *** elastomer actuators(DEAs)are well known as a kind of soft actuation technology,and their research prospect in biomechanical field is gradually concerned due to their properties just like large deformation(>100%)and fast response(<1 ms).In addition,DEAs are usually optically transparent and can be fabricated into small volume,which make them easy to cooperate with regular microscope to realize real-time dynamic imaging of *** paper first reviews the basic components,principle,and evaluation of DEAs and then overview some corresponding applications of DEAs for cellular mechanobiology *** also provide a comparison between DEA-based bioreactors and current custom-built devices and share some opinions about their potential applications in the future according to widely reported results via other methods.

关键词： Dielectric elastomer actuator Mechanical stimulus Bioreactor Mechanobiology