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arXiv 2023年

作者： Reinke, Annika Tizabi, Minu D. Baumgartner, Michael Eisenmann, Matthias Heckmann-Nötzel, Doreen Kavur, A. Emre Rädsch, Tim Sudre, Carole H. Acion, Laura Antonelli, Michela Arbel, Tal Bakas, Spyridon Benis, Arriel Blaschko, Matthew B. Buettner, Florian Cardoso, M. Jorge Cheplygina, Veronika Chen, Jianxu Christodoulou, Evangelia Cimini, Beth A. Collins, Gary S. Farahani, Keyvan Ferrer, Luciana Galdran, Adrian van Ginneken, Bram Glocker, Ben Godau, Patrick Haase, Robert Hashimoto, Daniel A. Hoffman, Michael M. Huisman, Merel Isensee, Fabian Jannin, Pierre Kahn, Charles E. Kainmueller, Dagmar Kainz, Bernhard Karargyris, Alexandros Karthikesalingam, Alan Kenngott, Hannes Kleesiek, Jens Kofler, Florian Kooi, Thijs Kopp-Schneider, Annette Kozubek, Michal Kreshuk, Anna Kurc, Tahsin Landman, Bennett A. Litjens, Geert Madani, Amin Maier-Hein, Klaus Martel, Anne L. Mattson, Peter Meijering, Erik Menze, Bjoern Moons, Karel G.M. Müller, Henning Nichyporuk, Brennan Nickel, Felix Petersen, Jens Rafelski, Susanne M. Rajpoot, Nasir Reyes, Mauricio Riegler, Michael A. Rieke, Nicola Saez-Rodriguez, Julio Sánchez, Clara I. Shetty, Shravya Summers, Ronald M. Taha, Abdel A. Tiulpin, Aleksei Tsaftaris, Sotirios A. van Calster, Ben Varoquaux, Gaël Yaniv, Ziv R. Jäger, Paul F. Maier-Hein, Lena Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Heidelberg Division of Intelligent Medical Systems Germany NCT Heidelberg A Partnership Between DKFZ University Medical Center Heidelberg Germany Heidelberg Division of Medical Image Computing Germany Heidelberg Division of Intelligent Medical Systems Germany MRC Unit for Lifelong Health and Ageing UCL Centre for Medical Image Computing Department of Computer Science University College London London United Kingdom School of Biomedical Engineering and Imaging Science King’s College London London United Kingdom Instituto de Cálculo CONICET – Universidad de Buenos Aires Buenos Aires Argentina Centre for Medical Image Computing University College London London United Kingdom McGill University Montreal Canada Division of Computational Pathology Dept of Pathology & Laboratory Medicine Indiana University School of Medicine IU Health Information and Translational Sciences Building Indianapolis United States University of Pennsylvania Richards Medical Research Laboratories FL7 PhiladelphiaPA United States Department of Digital Medical Technologies Holon Institute of Technology Holon Israel European Federation for Medical Informatics Le Mont-sur-Lausanne Switzerland Center for Processing Speech and Images Department of Electrical Engineering KU Leuven Leuven Belgium partner site Frankfurt/Mainz a partnership between DKFZ and UCT Frankfurt Marburg Germany Heidelberg Germany Goethe University Frankfurt Department of Medicine Germany Goethe University Frankfurt Department of Informatics Germany and Frankfurt Cancer Insititute Germany Department of Computer Science IT University of Copenhagen Copenhagen Denmark Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V. Dortmund Germany Imaging Platform Broad Institute of MIT and Harvard CambridgeMA United States Centre for Statistics in Medicine University of Oxford Oxford United Kingdom Center for Biomedical In

Validation metrics are key for tracking scientific progress and bridging the current chasm between artificial intelligence (ai) research and its translation into practice. However, increasing evidence shows that particularly in image analysis, metrics are often chosen inadequately. While taking into account the individual strengths, weaknesses, and limitations of validation metrics is a critical prerequisite to making educated choices, the relevant knowledge is currently scattered and poorly accessible to individual researchers. Based on a multi-stage Delphi process conducted by a multidisciplinary expert consortium as well as extensive community feedback, the present work provides the first reliable and comprehensive common point of access to information on pitfalls related to validation metrics in image analysis. While focused on biomedical image analysis, the addressed pitfalls generalize across application domains and are categorized according to a newly created, domain-agnostic taxonomy. The work serves to enhance global comprehension of a key topic in image analysis validation. © 2023, CC BY.

关键词： Computer vision

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LimeSoDa: A dataset collection for benchmarking of machine learning regressors in digital soil mapping

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Geoderma 2025年 459卷

作者： Schmidinger, Jonas Vogel, Sebastian Barkov, Viacheslav Pham, Anh-Duy Gebbers, Robin Tavakoli, Hamed Correa, Jose Tavares, Tiago R. Filippi, Patrick Jones, Edward J. Lukas, Vojtech Boenecke, Eric Ruehlmann, Joerg Schroeter, Ingmar Kramer, Eckart Paetzold, Stefan Kodaira, Masakazu Wadoux, Alexandre M.J.-C. Bragazza, Luca Metzger, Konrad Huang, Jingyi Valente, Domingos S.M. Safanelli, Jose L. Bottega, Eduardo L. Dalmolin, Ricardo S.D. Farkas, Csilla Steiger, Alexander Horst, Taciara Z. Ramirez-Lopez, Leonardo Scholten, Thomas Stumpf, Felix Rosso, Pablo Costa, Marcelo M. Zandonadi, Rodrigo S. Wetterlind, Johanna Atzmueller, Martin Osnabrück University Joint Lab Artificial Intelligence and Data Science Osnabrück Germany Department of Agromechatronics Potsdam Germany Piracicaba Brazil The University of Sydney Sydney Institute of Agriculture Sydney Australia Mendel University in Brno Department of Agrosystems and Bioclimatology Brno Czech Republic Leibniz Institute of Vegetable and Ornamental Crops Next Generation Horticultural Systems Grossbeeren Germany Eberswalde University for Sustainable Development Landscape Management and Nature Conservation Eberswalde Germany —Soil Science and Soil Ecology Bonn Germany Tokyo University of Agriculture and Technology Institute of Agriculture Tokyo Japan LISAH Univ. Montpellier AgroParisTech INRAE IRD L'Institut Agro Montpellier France Agroscope Field-Crop Systems and Plant Nutrition Nyon Switzerland University of Wisconsin-Madison Department of Soil Science Madison United States Federal University of Viçosa Department of Agricultural Engineering Viçosa Brazil Woodwell Climate Research Center Falmouth United States Academic Coordination Santa Maria Brazil Soil Department Santa Maria Brazil Division of Environment and Natural Resources Aas Norway University of Rostock Chair of Geodesy and Geoinformatics Rostock Germany Federal Technological University of Paraná Dois Vizinhos Brazil BÜCHI Labortechnik AG Data Science Department Flawil Switzerland Imperial College London Imperial College Business School London United Kingdom University of Tübingen Department of Geosciences Tübingen Germany University of Tübingen DFG Cluster of Excellence ‘Machine Learning for Science’ Germany Bern University of Applied Sciences Competence Center for Soils Zollikofen Switzerland Simulation and Data Science Müncheberg Germany Federal University of Jataí Institute of Agricultural Sciences Jatai Brazil Federal University of Mato Grosso Instute of Agricultural and Environmental Scinces Sinop Brazil Department of Soil and Environment Skara S

Digital soil mapping (DSM) relies on a broad pool of statistical methods, yet determining the optimal method for a given context remains challenging and contentious. Benchmarking studies on multiple datasets are needed to reveal strengths and limitations of commonly used methods. Existing DSM studies usually rely on a single dataset with restricted access, leading to incomplete and potentially misleading conclusions. To address these issues, we introduce an open-access dataset collection called Precision Liming Soil Datasets (LimeSoDa). LimeSoDa consists of 31 field- and farm-scale datasets from various countries. Each dataset has three target soil properties: (1) soil organic matter or soil organic carbon, (2) clay content and (3) pH, alongside a set of features. Features are dataset-specific and were obtained by optical spectroscopy, proximal- and remote soil sensing. All datasets were aligned to a tabular format and are ready-to-use for modeling. We demonstrated the use of LimeSoDa for benchmarking by comparing the predictive performance of four learning algorithms across all datasets. This comparison included multiple linear regression (MLR), support vector regression (SVR), categorical boosting (CatBoost) and random forest (RF). The results showed that although no single algorithm was universally superior, certain algorithms performed better in specific contexts. MLR and SVR performed better on high-dimensional spectral datasets, likely due to better compatibility with principal components. In contrast, CatBoost and RF exhibited considerably better performances when applied to datasets with a moderate number ( © 2025 The Author(s)

关键词： Random forests

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The Brain Tumor Segmentation (BraTS) Challenge: Local Synthesis of Healthy Brain Tissue via Inpainting

arXiv

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arXiv 2023年

作者： Kofler, Florian Steinbauer, Felix Meissen, Felix Graf, Robert Ehrlich, Stefan K. Reinke, Annika Oswald, Eva Waldmannstetter, Diana Hoelzl, Florian Horvath, Izabela Turgut, Oezguen Shit, Suprosanna Bukas, Christina Yang, Kaiyuan Paetzold, Johannes C. de da Rosa, Ezequiel Mekki, Isra Vinayahalingam, Shankeeth Kassem, Hasan Zhang, Juexin Chen, Ke Weng, Ying Durrer, Alicia Cattin, Philippe C. Wolleb, Julia Sadique, M.S. Rahman, M.M. Farzana, W. Temtam, A. Iftekharuddin, K.M. Adewole, Maruf Anwar, Syed Muhammad Baid, Ujjwal Janas, Anastasia Kazerooni, Anahita Fathi LaBella, Dominic Bran Li, Hongwei Moawad, Ahmed W. Conte, Gian-Marco Farahani, Keyvan Eddy, James Sheller, Micah Pati, Sarthak Karagyris, Alexandros Aristizabal, Alejandro Bergquist, Timothy Chung, Verena Shinohara, Russell Takeshi Dako, Farouk Wiggins, Walter Reitman, Zachary Wang, Chunhao Liu, Xinyang Jiang, Zhifan Johanson, Elaine Meier, Zeke Familiar, Ariana Davatzikos, Christos Freymann, John Kirby, Justin Bilello, Michel Fathallah-Shaykh, Hassan M. Wiest, Roland Kirschke, Jan Colen, Rivka R. Kotrotsou, aikaterini Lamontagne, Pamela Marcus, Daniel Milchenko, Mikhail Nazeri, Arash Weber, Marc-André Mahajan, Abhishek Mohan, Suyash Mongan, John Hess, Christopher Cha, Soonmee Villanueva-Meyer, Javier Colak, Errol Crivellaro, Priscila Jakab, Andras Fatade, Abiodun Omidiji, Olubukola Akinola Lagos, Rachel Olatunji, O.O. Khanna, Goldey Kirkpatrick, John Alonso-Basanta, Michelle Rashid, Arif Bornhorst, Miriam Nabavizadeh, Ali Lepore, Natasha Palmer, Joshua Porras, Antonio Albrecht, Jake Anazodo, Udunna Aboian, Mariam Calabrese, Evan Rudie, Jeffrey David Linguraru, Marius George Iglesias, Juan Eugenio Van Leemput, Koen Bakas, Spyridon Wiestler, Benedikt Ezhov, Ivan Piraud, Marie Menze, Bjoern H. Helmholtz AI Germany Technical University of Munich Germany Helmholtz Munich Germany Klinikum Rechts der Isar Munich Germany SETLabs Research GmbH Healthcare Technologies Munich Germany Heidelberg Division of Intelligent Medical Systems Germany Heidelberg HI Helmholtz Imaging Germany Institute of Clinical Neuroimmunology Faculty of Medicine Ludwig Maximilian University Munich Germany University of Zurich Switzerland Helmholtz Research Center Munich Germany Imperial College London United Kingdom Icometrix Leuven Belgium Department of Oral and Maxillofacial Surgery Radboudumc Netherlands Department of Artificial Intelligence Radboud University Netherlands MLCommons University of Nottingham Ningbo China Ningbo315100 China Center for medical Image Analysis and Navigation Department of Biomedical Engineering University of Basel Allschwil Switzerland Old Dominion University NorfolkVA23529 United States Lab Crestview Radiology Lagos Nigeria Children's National Hospital WashingtonDC United States George Washington University WashingtonDC United States University of Pennsylvania PhiladelphiaPA United States Department of Radiology Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Yale University New HavenCT United States Children's Hospital of Philadelphia University of Pennsylvania PhiladelphiaPA United States Duke University Medical Center Department of Radiation Oncology United States Athinoula A Martinos Center for Biomedical Imaging Massachusetts General Hospital BostonMA United States Department of Neuroradiology Technical University of Munich Munich Germany Mercy Catholic Medical Center DarbyPA United States Department of Radiology Mayo Clinic RochesterMN United States Cancer Imaging Program National Cancer Institute National Institutes of Health BethesdaMD20814 U

A myriad of algorithms for the automatic analysis of brain MR images is available to support clinicians in their decision-making. For brain tumor patients, the image acquisition time series typically starts with an already pathological scan. This poses problems, as many algorithms are designed to analyze healthy brains and provide no guarantee for images featuring lesions. Examples include but are not limited to algorithms for brain anatomy parcellation, tissue segmentation, and brain extraction. To solve this dilemma, we introduce the BraTS inpainting challenge. Here, the participants explore inpainting techniques to synthesize healthy brain scans from lesioned ones. The following manuscript contains the task formulation, dataset, and submission procedure. Later, it will be updated to summarize the findings of the challenge. The challenge is organized as part of the ASNR-BraTS MICCai challenge. Copyright © 2023, The Authors. All rights reserved.

关键词： Magnetic resonance imaging

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Feasibility of multiomics tumor profiling for guiding treatment of melanoma

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Nature medicine 2025年 2025 May 27页

作者： Nicola Miglino Nora C Toussaint Alexander Ring Ximena Bonilla Marina Tusup Benedict Gosztonyi Tarun Mehra Gabriele Gut Francis Jacob Stephane Chevrier Kjong-Van Lehmann Ruben Casanova Andrea Jacobs Sujana Sivapatham Laura Boos Parisa Rahimzadeh Manuel Schuerch Bettina Sobottka Natalia Chicherova Shuqing Yu Rebekka Wegmann Julien Mena Emanuela S Milani Sandra Goetze Cinzia Esposito Jacobo Sarabia Del Castillo Anja L Frei Marta Nowak Anja Irmisch Jack Kuipers Monica-Andreea Baciu-Drăgan Pedro F Ferreira Franziska Singer Anne Bertolini Michael Prummer Ulrike Lischetti Rudolf Aebersold Marina Bacac Gerd Maass Holger Moch Michael Weller Alexandre P A Theocharides Markus G Manz Niko Beerenwinkel Christian Beisel Lucas Pelkmans Berend Snijder Bernd Wollscheid Viola Heinzelmann Bernd Bodenmiller Mitchell P Levesque Viktor H Koelzer Gunnar Rätsch Reinhard Dummer Andreas Wicki Department of Medical Oncology and Hematology University of Zurich and University Hospital Zurich Switzerland. NEXUS Personalized Health Technologies ETH Zurich Zurich Switzerland. SIB Swiss Institute of Bioinformatics Lausanne Switzerland. Swiss Data Science Center SDSC Zurich Switzerland. Department of Computer Science Institute of Machine Learning ETH Zurich Zurich Switzerland. Department of Dermatology University Hospital Zurich University of Zurich Zurich Switzerland. Department of Biomedicine University Hospital Basel and University of Basel Basel Switzerland. Department of Quantitative Biomedicine University of Zurich Zurich Switzerland. Department of Biology RWTH Aachen Aachen Germany. Department of Pathology and Molecular Pathology University of Zurich and University Hospital Zurich Switzerland. Department of Biology Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland. Department of Health Sciences and Technology ETH Zurich Zurich Switzerland. ETH PHRT Swiss Multi-Omics Center (SMOC) ETH Zurich Zurich Switzerland. Department of Molecular Life Sciences University of Zurich Zurich Switzerland. Roche Pharmaceutical Research and Early Development Roche Innovation Center Zurich Switzerland. Department of Biosystems Science and Engineering ETH Zurich Basel Switzerland. Roche Diagnostics GmbH MWG Penzberg Germany. Department of Neurology University Hospital and University of Zurich Zurich Switzerland. Institute of Medical Genetics and Pathology University Hospital Basel Basel Switzerland. Biomedical Informatics University Hospital Zurich Zurich Switzerland. AI Center at ETH Zurich ETH Zurich Zurich Switzerland. Department of Biology ETH Zurich Zurich Switzerland. Department of Medical Oncology and Hematology University of Zurich and University Hospital Zurich Switzerland. andreas.wicki@usz.ch.

There is limited evidence supporting the feasibility of using omics and functional technologies to inform treatment decisions. Here we present results from a cohort of 116 melanoma patients in the prospective, multicentric observational Tumor Profiler (TuPro) precision oncology project. Nine independent technologies, mostly at single-cell level, were used to analyze 126 patient samples, generating up to 500 Gb of data per sample (40,000 potential markers) within 4 weeks. Among established and experimental markers, the molecular tumor board selected 54 to inform its treatment recommendations. In 75% of cases, TuPro-based data were judged to be useful in informing recommendations. Patients received either standard of care (SOC) treatments or highly individualized, polybiomarker-driven treatments (beyond SOC). The objective response rate in difficult-to-treat palliative, beyond SOC patients (n = 37) was 38%, with a disease control rate of 54%. Progression-free survival of patients with TuPro-informed therapy decisions was 6.04 months, (95% confidence interval, 3.75-12.06) and 5.35 months (95% confidence interval, 2.89-12.06) in ≥third therapy lines. The proof-of-concept TuPro project demonstrated the feasibility and relevance of omics-based tumor profiling to support data-guided clinical decision-making. *** identifier: NCT06463509 .

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Artificial intelligence-based health management system: Unequally spaced medical data analysis

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NTT Technical Review 2018年第8期16卷 24-28页

作者： Kurasawa, Hisashi Fujino, Akinori Hayashi, Katsuyoshi Networked Robot and Gadget Project NTT Service Evolution Laboratories Japan Learning and Intelligent Systems Research Group TT Service Evolution Laboratories Japan Social Device Technology Laboratory Device Technology Laboratories and Research and Development Planning Department NTT Japan

We are developing an artificial intelligence (ai)-based health management system that suggests efficient and effective interventions for keeping people healthy based on the potential risk of disease predicted by using ai. We proposed a new feature extraction model for unequally spaced medical data that improves the disease risk prediction. We introduce the model in detail in this article and also describe an application of the model that demonstrates the improved prediction accuracy. © 2018 Nippon Telegraph and Telephone Corp. All rights reserved.

关键词： Artificial intelligence

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Author Correction: π-HuB: the proteomic navigator of the human body

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Nature 2025年第8046期637卷 E22页

作者： Fuchu He Ruedi Aebersold Mark S Baker Xiuwu Bian Xiaochen Bo Daniel W Chan Cheng Chang Luonan Chen Xiangmei Chen Yu-Ju Chen Heping Cheng Ben C Collins Fernando Corrales Jürgen Cox Weinan E Jennifer E Van Eyk Jia Fan Pouya Faridi Daniel Figeys George Fu Gao Wen Gao Zu-Hua Gao Keisuke Goda Wilson Wen Bin Goh Dongfeng Gu Changjiang Guo Tiannan Guo Yuezhong He Albert J R Heck Henning Hermjakob Tony Hunter Narayanan Gopalakrishna Iyer Ying Jiang Connie R Jimenez Lokesh Joshi Neil L Kelleher Ming Li Yang Li Qingsong Lin Cui Hua Liu Fan Liu Guang-Hui Liu Yansheng Liu Zhihua Liu Teck Yew Low Ben Lu Matthias Mann Anming Meng Robert L Moritz Edouard Nice Guang Ning Gilbert S Omenn Christopher M Overall Giuseppe Palmisano Yaojin Peng Charles Pineau Terence Chuen Wai Poon Anthony W Purcell Jie Qiao Roger R Reddel Phillip J Robinson Paola Roncada Chris Sander Jiahao Sha Erwei Song Sanjeeva Srivastava aihua Sun Siu Kwan Sze Chao Tang Liujun Tang Ruijun Tian Juan Antonio Vizcaíno Chanjuan Wang Chen Wang Xiaowen Wang Xinxing Wang Yan Wang Tobias Weiss Mathias Wilhelm Robert Winkler Bernd Wollscheid Limsoon Wong Linhai Xie Wei Xie Tao Xu Tianhao Xu Liying Yan Jing Yang Xiao Yang John Yates Tao Yun Qiwei Zhai Bing Zhang Hui Zhang Lihua Zhang Lingqiang Zhang Pingwen Zhang Yukui Zhang Yu Zi Zheng Qing Zhong Yunping Zhu State Key Laboratory of Medical Proteomics Beijing Proteome Research Center National Center for Protein Sciences (Beijing) Beijing Institute of Lifeomics Beijing China. hefc@***. International Academy of Phronesis Medicine (Guangdong) Guangdong China. hefc@***. Department of Biology Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland. aebersold@imsb.biol.ethz.ch. Macquarie Medical School Macquarie University Sydney New South Wales Australia. Institute of Pathology and Southwest Cancer Center Southwest Hospital Third Military Medical University (Army Medical University) and Key Laboratory of Tumor Immunopathology Ministry of Education of China Chongqing China. Institute of Health Service and Transfusion Medicine Beijing China. Department of Pathology and The Sidney Kimmel Comprehensive Cancer Center Johns Hopkins University Baltimore MD USA. State Key Laboratory of Medical Proteomics Beijing Proteome Research Center National Center for Protein Sciences (Beijing) Beijing Institute of Lifeomics Beijing China. Key Laboratory of Systems Biology Center for Excellence in Molecular Cell Science Shanghai Institute of Biochemistry and Cell Biology Chinese Academy of Sciences Shanghai China. Department of Nephrology First Medical Center of Chinese PLA General Hospital Nephrology Institute of the Chinese People's Liberation Army State Key Laboratory of Kidney Diseases National Clinical Research Center for Kidney Diseases Beijing Key Laboratory of Kidney Disease Research Beijing China. Institute of Chemistry Academia Sinica Taipei China. National Biomedical Imaging Center State Key Laboratory of Membrane Biology Institute of Molecular Medicine Peking-Tsinghua Center for Life Sciences College of Future Technology Peking University Beijing China. School of Biological Sciences Queen's University of Belfast Belfast UK. Functional Proteomics Laboratory Centro Nacional de Biotecnología-CSIC Madrid Spain. Computational Systems Biochemistry Research Group Ma

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Correction for Rando et al., "Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure"

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msystems 2022年第1期7卷 e0144721页

作者： Halie M Rando Adam L MacLean Alexandra J Lee Ronan Lordan Sandipan Ray Vikas Bansal Ashwin N Skelly Elizabeth Sell John J Dziak Lamonica Shinholster Lucy D'Agostino McGowan Marouen Ben Guebila Nils Wellhausen Sergey Knyazev Simina M Boca Stephen Capone Yanjun Qi YoSon Park David Mai Yuchen Sun Joel D Boerckel Christian Brueffer James Brian Byrd Jeremy P Kamil Jinhui Wang Ryan Velazquez Gregory L Szeto John P Barton Rishi Raj Goel Serghei Mangul Tiago Lubiana Anthony Gitter Casey S Greene Department of Systems Pharmacology and Translational Therapeutics University of Pennsylvania Philadelphia Pennsylvania USA. Department of Biochemistry and Molecular Genetics University of Colorado School of Medicine Aurora Colorado USA. Center for Health AI University of Colorado School of Medicine Aurora Colorado USA. Department of Quantitative and Computational Biology University of Southern California Los Angeles California USA. Institute for Translational Medicine and Therapeutics Perelman School of Medicine University of Pennsylvania Philadelphia Pennsylvania USA. Department of Biotechnology Indian Institute of Technology Hyderabad Sangareddy Telangana India. Biomedical Data Science and Machine Learning Group German Center for Neurodegenerative Diseases Tübingen Germany. Perelman School of Medicine University of Pennsylvania Philadelphia Pennsylvania USA. Institute for Immunology Perelman School of Medicine University of Pennsylvania Philadelphia Pennsylvania USA. Edna Bennett Pierce Prevention Research Center The Pennsylvania State University University Park Pennsylvania USA. Mercer University Macon Georgia USA. Department of Mathematics and Statistics Wake Forest University Winston-Salem North Carolina USA. Department of Biostatistics Harvard School of Public Health Boston Massachusetts USA. Georgia State University Atlanta Georgia USA. Innovation Center for Biomedical Informatics Georgetown University Medical Center Washington DC USA. St. George's University School of Medicine St. George's Grenada. Department of Computer Science University of Virginiagrid.27755.32 Charlottesville Virginia USA. Department of Bioengineering University of Pennsylvania Philadelphia Pennsylvania USA. Department of Orthopaedic Surgery Perelman School of Medicine University of Pennsylvania Philadelphia Pennsylvania USA. Department of Clinical Sciences Lund University Lund Sweden. University of Michigan School of Medicine Ann Arbor Michigan USA. Depar

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The Liver Tumor Segmentation Benchmark (LiTS)

arXiv

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arXiv 2019年

作者： Bilic, Patrick Christ, Patrick Li, Hongwei Bran Vorontsov, Eugene Ben-Cohen, Avi Kaissis, Georgios Szeskin, Adi Jacobs, Colin Mamani, Gabriel Efrain Humpire Chartrand, Gabriel Lohöfer, Fabian Holch, Julian Walter Sommer, Wieland Hofmann, Felix Hostettler, Alexandre Lev-Cohain, Naama Drozdzal, Michal Amitai, Michal Marianne Vivanti, Refael Sosna, Jacob Ezhov, Ivan Sekuboyina, Anjany Navarro, Fernando Kofler, Florian Paetzold, Johannes C. Shit, Suprosanna Hu, Xiaobin Lipková, Jana Rempfler, Markus Piraud, Marie Kirschke, Jan Wiestler, Benedikt Zhang, Zhiheng Hülsemeyer, Christian Beetz, Marcel Ettlinger, Florian Antonelli, Michela Bae, Woong Bellver, Míriam Bi, Lei Chen, Hao Chlebus, Grzegorz Dam, Erik B. Dou, Qi Fu, Chi-Wing Georgescu, Bogdan Giró-I-Nieto, Xavier Gruen, Felix Han, Xu Heng, Pheng-Ann Hesser, Jürgen Moltz, Jan Hendrik Igel, Christian Isensee, Fabian Jäger, Paul Jia, Fucang Kaluva, Krishna Chaitanya Khened, Mahendra Kim, Ildoo Kim, Jae-Hun Kim, Sungwoong Kohl, Simon Konopczynski, Tomasz Kori, Avinash Krishnamurthi, Ganapathy Li, Fan Li, Hongchao Li, Junbo Li, Xiaomeng Lowengrub, John Ma, Jun Maier-Hein, Klaus Maninis, Kevis-Kokitsi Meine, Hans Merhof, Dorit Pai, Akshay Perslev, Mathias Petersen, Jens Pont-Tuset, Jordi Qi, Jin Qi, Xiaojuan Rippel, Oliver Roth, Karsten Sarasua, Ignacio Schenk, Andrea Shen, Zengming Torres, Jordi Wachinger, Christian Wang, Chunliang Weninger, Leon Wu, Jianrong Xu, Daguang Yang, Xiaoping Yu, Simon Chun-Ho Yuan, Yading Yue, Miao Zhang, Liping Cardoso, Jorge Bakas, Spyridon Braren, Rickmer Heinemann, Volker Pal, Christopher Tang, An Kadoury, Samuel Soler, Luc van Ginneken, Bram Greenspan, Hayit Joskowicz, Leo Menze, Bjoern Department of Informatics Technical University of Munich Germany Department of Quantitative Biomedicine University of Zurich Switzerland Ecole Polytechnique de Montréal Canada Department of Medical Imaging Radboud University Medical Center Nijmegen Netherlands Department of Biomedical Engineering Tel-Aviv University Israel Germany Pattern Analysis and Learning Group Department of Radiation Oncology Heidelberg University Hospital Heidelberg Germany Philips Research China Philips China Innovation Campus Shanghai China School of Biomedical Engineering & Imaging Sciences King0s College London London United Kingdom Institute for AI in Medicine Technical University of Munich Germany Department of Computer Science Guangdong University of Foreign Studies China Institute for diagnostic and interventional radiology Klinikum rechts der Isar Technical University of Munich Germany Institute for Diagnostic and Interventional Neuroradiology Klinikum Rechts der Isar Technical University of Munich Germany Department of Hepatobiliary Surgery The Affiliated Drum Tower Hospital Nanjing University Medical School China Department of Computing Imperial College London London United Kingdom Institute for Tissue Engineering and Regenerative Medicine Helmholtz Zentrum München Neuherberg Germany Brigham and Women's Hospital Harvard Medical School United States School of Computer Science and Engineering The Hebrew University of Jerusalem Israel University of Pennsylvania PA United States Pte. Ltd. Singapore Medical Imaging and Reconstruction Lab Department of Engineering Design Indian Institute of Technology Madras India Sensetime Shanghai China Department of Radiology Perelman School of Medicine University of Pennsylvania United States Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania PA United States Co. Ltd China MontréalQC Canada Department of Radiology Radiation Oncology and Nuclear Medicine University of Montréal

In this work, we report the set-up and results of the Liver Tumor Segmentation Benchmark (LiTS), which was organized in conjunction with the IEEE International Symposium on Biomedical Imaging (ISBI) 2017 and the International Conferences on Medical Image Computing and Computer-Assisted Intervention (MICCai) 2017 and 2018. The image dataset is diverse and contains primary and secondary tumors with varied sizes and appearances with various lesion-to-background levels (hyper-/hypo-dense), created in collaboration with seven hospitals and research institutions. Seventy-five submitted liver and liver tumor segmentation algorithms were trained on a set of 131 computed tomography (CT) volumes and were tested on 70 unseen test images acquired from different patients. We found that not a single algorithm performed best for both liver and liver tumors in the three events. The best liver segmentation algorithm achieved a Dice score of 0.963, whereas, for tumor segmentation, the best algorithms achieved Dices scores of 0.674 (ISBI 2017), 0.702 (MICCai 2017), and 0.739 (MICCai 2018). Retrospectively, we performed additional analysis on liver tumor detection and revealed that not all top-performing segmentation algorithms worked well for tumor detection. The best liver tumor detection method achieved a lesion-wise recall of 0.458 (ISBI 2017), 0.515 (MICCai 2017), and 0.554 (MICCai 2018), indicating the need for further research. LiTS remains an active benchmark and resource for research, e.g., contributing the liver-related segmentation tasks in http://***/. In addition, both data and online evaluation are accessible via ***. © 2019, CC BY-NC-ND.

关键词： Deep learning

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A Study On Iterative learning Control With Adjustment Of learning Interval For Monotone Convergence In The Sense Of Sup-Norm

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Asian Journal of Control 2008年第1期4卷

作者： Kwang-Hyun Park Zeungnam Bien Division of EE Department of EECS Korea Advanced Institute of Science and Technology 373–1 Kusong-dong Yusong-gu Taejon 305–701 Korea. Zeungname Bien:received the B.S. degree in electronics engineering from Seoul National University Seoul Korea in 1969 and the M.S. and Ph.D. degrees in electrical engineering from the University of Iowa Iowa City Iowa U.S.A. in 1972 and 1975 respectively. During 1976–1977 academic years he taught as assistant professor at the Department of Electrical Engineering University of Iowa. Then Dr. Bien joined Korea Advanced Institute of Science and Technology summer 1977 and is now Professor of Control Engineering at the Department of Electrical Engineering and Computer Science KAIST. Dr. Bien was the president of the Korea Fuzzy Logic and Intelligent Systems Society during 1990–1995 and also the general chair of IFSA World Congress 1993 and for FUZZ-IEEE99 respectively. He is currently co-Editor-in-Chief for International Journal of Fuzzy Systems (IJFS) Associate Editor for IEEE Transactions on Fuzzy Systems and a regional editor for the International Journal of Intelligent Automation and Soft Computing. He has been serving as Vice President for IFSA since 1997 and is now Chief Chairman of Institute of Electronics Engineers of Korea and Director of Humanfriendly Welfare Robot System Research Center. His current research interests include intelligent control methods with emphasis on fuzzy logic systems service robotics and rehabilitation engineering and large-scale industrial control systems. Kwang-Hyun Park:received the B.S. M.S. and Ph.D. degrees in electrical engineering and computer science from KAIST Korea in 1994 19997 and 2001 respectively. He is now a researcher at Human-friendly Welfare Robot System Research Center. His research interests include learning control machine learning human-friendly interfaces and service robotics.

It has been found that some huge overshoot in the sense of sup-norm may be observed when typical iterative learning control (ILC) algorithms are applied to LTI systems, even though monotone convergence in the sense of λ-norm is guaranteed. In this paper, a new ILC algorithm with adjustment of learning interval is proposed to resolve such an undesirable phenomenon, and it is shown that the output error can be monotonically converged to zero in the sense of sup-norm when the proposed ILC algorithm is applied. A numerical example is given to show the effectiveness of the proposed algorithm.

关键词： Iterative learning control monotone convergence learning interval sup-norm

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TRACKING CONTROL IN THE PRESENCE OF NONLINEAR DYNAMIC FRICTIONAL EFFECTS: robot EXTENSION

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Asian Journal of Control 2008年第3期1卷

作者： M. Feemster D.M. Dawson A. Behal W. Dixon Matthew Feemster received the B.S degree in Electrical Engineering from Clemson University Clemson South Carolina in December 1994. Upon graduation he remained at Clemson University and received the M.S. degree in Electrical Engineering in 1997. During this time he also served as a research/teaching assistant. His research work focused on the design and implementation of various nonlinear control algorithms with emphasis on the induction motor and mechanical systems with friction present. He is currently working toward his Ph.D. degree in Electrical Engineering at Clemson University. Darren M. Dawson was born in 1962 in Macon Georgia. He received an Associate Degree in Mathematics from Macon Junior College in 1982 and a B.S. Degree in Electrical Engineering from the Georgia Institute of Technology in 1984. He then worked for Westinghouse as a control engineer from 1985 to 1987. In 1987 he returned to the Georgia Institute of Technology where he received the Ph.D. Degree in Electrical Engineering in March 1990. During this time he also served as a research/teaching assistant. In July 1990 he joined the Electrical and Computer Engineering Department and the Center for Advanced Manufacturing (CAM) at Clemson University where he currently holds the position of Professor. Under the CAM director's supervision he currently leads the Robotics and Manufacturing Automation Laboratory which is jointly operated by the Electrical and Mechanical Engineering departments. His main research interests are in the fields of nonlinear based robust adaptive and learning control with application to electro-mechanical systems including robot manipulators motor drives magnetic bearings flexible cables flexible beams and high-speed transport systems. Aman Behal was born in India in 1973. He received his Masters Degree in Electrical Engineering from Indian Institute of Technology Bombay in 1996. He is currently working towards a Ph.D in Controls and Robotics at Clemson University. His research focuses on the control of no

In this paper, we extend the observer/control strategies previously published in [25] to an n -link, serially connected, direct drive, rigid link, revolute robot operating in the presence of nonlinear friction effects modeled by the Lu-Gre model. In addition, we also present a new adaptive control technique for compensating for the nonlinear parameterizable Stribeck effects. Specifically, an adaptive observer/controller scheme is developed which contains a feedforward approximation of the Stribeck effects. This feedforward approximation is used in a composite controller/observer strategy which forces the average square integral of the position tracking error to an arbitrarily small value. Experimental results are included to illustrate the performance of the proposed controllers.

关键词： Friction compensation nonlinear control

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