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A Robust Ensemble Algorithm for Ischemic Stroke Lesion Segmentation: Generalizability and Clinical Utility Beyond the ISLES Challenge

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arXiv 2024年

作者： de la Rosa, Ezequiel Reyes, Mauricio Liew, Sook-Lei Hutton, Alexandre Wiest, Roland Kaesmacher, Johannes Hanning, Uta Hakim, Arsany Zubal, Richard Valenzuela, Waldo Robben, David Sima, Diana M. Anania, Vincenzo Brys, Arne Meakin, James A. Mickan, Anne Broocks, Gabriel Heitkamp, Christian Gao, Shengbo Liang, Kongming Zhang, Ziji Siddiquee, Md Mahfuzur Rahman Myronenko, Andriy Ashtari, Pooya Van Huffel, Sabine Jeong, Hyun-Su Yoon, Chi-Ho Kim, Chulhong Huo, Jiayu Ourselin, Sebastien Sparks, Rachel Clèrigues, Albert Oliver, Arnau Lladó, Xavier Chalcroft, Liam Pappas, Ioannis Bertels, Jeroen Heylen, Ewout Moreau, Juliette Hatami, Nima Frindel, Carole Qayyum, Abdul Mazher, Moona Puig, Domenec Lin, Shao-Chieh Juan, Chun-Jung Hu, Tianxi Boone, Lyndon Goubran, Maged Liu, Yi-Jui Wegener, Susanne Kofler, Florian Ezhov, Ivan Shit, Suprosanna Hernandez Petzsche, Moritz R. Menze, Bjoern Kirschke, Jan S. Wiestler, Benedikt Department of Quantitative Biomedicine University of Zurich Zurich Switzerland Department of Informatics Technical University Munich Germany Icometrix Leuven Belgium ARTORG Center for Biomedical Research University of Bern Bern Switzerland Department of Radiation Oncology University Hospital Bern University of Bern Switzerland University of Bern Bern Switzerland Chan Division of Occupational Science and Occupational Therapy University of Southern California Los AngelesCA United States Stevens Neuroimaging and Informatics Institute Department of Neurology Keck School of Medicine University of Southern California United States University Institute of Diagnostic and Interventional Neuroradiology Inselspital Bern Switzerland University Institute of Diagnostic and Interventional Neuroradiology University Hospital Bern Inselspital University of Bern Bern Switzerland Department of Diagnostic and Interventional neuroradiology University Medical Center Hamburg-Eppendorf Hamburg Germany Department of Medical Imaging Radboud University Medical Center Institute for Health Sciences Nijmegen Netherlands Deepwise AI Lab Beijing China Beijing University of Posts and Telecommunications Bejing China School of Computing and Augmented Intelligence Arizona State University TempeAZ United States NVIDIA Santa ClaraCA United States STADIUS Center for Dynamical Systems Signal Processing and Data Analytics KU Leuven Leuven Belgium Pohang Korea Republic of School of Biomedical Engineering & Imaging Sciences King’s College London United Kingdom Institute of Computer Vision and Robotics University of Girona Spain Wellcome Centre for Human Neuroimaging University College London London United Kingdom Laboratory of Neuro Imaging Stevens Institute for Neuroimaging and Informatics Keck School of Medicine University of Southern California Los Angeles United States KU Leuven Leuven Belgium CREATIS Université Lyon1 CNRS UMR5220 INSERM U1206 INSA-Lyon Villeurbanne696

Diffusion-weighted MRI (DWI) is essential for stroke diagnosis, treatment decisions, and prognosis. However, image and disease variability hinder the development of generalizable AI algorithms with clinical value. We address this gap by presenting a novel ensemble algorithm derived from the 2022 Ischemic Stroke Lesion Segmentation (ISLES) challenge. ISLES’22 provided 400 patient scans with ischemic stroke from various medical centers, facilitating the development of a wide range of cutting-edge segmentation algorithms by the research community. By assessing them against a hidden test set, we identified strengths, weaknesses, and potential biases. Through collaboration with leading teams, we combined top-performing algorithms into an ensemble model that overcomes the limitations of individual solutions. Our ensemble model combines the individual algorithms’ strengths and achieved superior ischemic lesion detection and segmentation accuracy (median Dice score: 0.82, median lesion-wise F1 score: 0.86) on our internal test set compared to individual algorithms. This accuracy generalized well across diverse image and disease variables. Furthermore, the model excelled in extracting clinical biomarkers like lesion types and affected vascular territories. Notably, in a Turing-like test, neuroradiologists consistently preferred the algorithm’s segmentations over manual expert efforts, highlighting increased comprehensiveness and precision. Validation using a real-world external dataset (N=1686) confirmed the model’s generalizability (median Dice score: 0.82, median lesion-wise F1 score: 0.86). The algorithm’s outputs also demonstrated strong correlations with clinical scores (admission NIHSS and 90-day mRS) on par with or exceeding expert-derived results, underlining its clinical relevance. This study offers two key findings. First, we present an ensemble algorithm that detects and segments ischemic stroke lesions on DWI across diverse scenarios on par with expert (neuro)rad

关键词： Diagnosis

P18.04.B SINGLE CELL TRANSCRIPTOMIC ANALYSIS IDENTIFIES DISTINCT INTRATUMORAL SUBCLONES IN MENINGIOMA

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Neuro-Oncology 2023年第SUPPLEMENT_2期25卷 ii122–ii122页

作者： Blume, C Tang, Y Dogan, H Ritter, M Dentro, S von Deimling, A Gerstung, M Schlesner, M Sahm, F Maas, S L N University Hospital Heidelberg Dept. of Neuropathology Heidelberg Germany German Cancer Research Center (DKFZ) German Consortium for Translational Cancer Research (DKTK) Clinical Cooperation Unit Neuropathology Heidelberg Germany Division of AI in Oncology German Cancer Research Center (DKFZ) Heidelberg Germany European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Hinxton United Kingdom Biomedical Informatics Data Mining and Data Analytics Faculty of Applied Computer Science and Medical Faculty University of Augsburg Augsburg Germany Department of Pathology Leiden University Medical Center Leiden Netherlands Department of Pathology Erasmus Medical Center Rotterdam Netherlands

Benchmarking in Optimization: Best Practice and Open Issues

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arXiv 2020年

作者： Bartz-Beielstein, Thomas Doerr, Carola Bossek, Jakob Chandrasekaran, Sowmya Eftimov, Tome Fischbach, Andreas Kerschke, Pascal López-Ibáñez, Manuel Malan, Katherine M. Moore, Jason H. Naujoks, Boris Orzechowski, Patryk Volz, Vanessa Wagner, Markus Weise, Thomas Institute for Data Science Engineering and Analytics TH Köln Germany Sorbonne Université CNRS LIP6 Paris France Optimisation and Logistics School of Computer Science University of Adelaide Adelaide Australia Computer Systems Department Jožef Stefan Institute Ljubljana Slovenia Statistics and Optimization Group University of Münster Münster Germany School of Computer Science and Engineering University of Málaga Málaga Spain Department of Decision Sciences University of South Africa Pretoria South Africa Institute for Biomedical Informatics University of Pennsylvania PhiladelphiaPA United States Department of Automatics AGH University of Science and Technology Krakow Poland modl.ai Copenhagen Denmark Institute of Applied Optimization School of Artificial Intelligence and Big Data Hefei University Hefei China

This survey compiles ideas and recommendations from more than a dozen researchers with different backgrounds and from different institutes around the world. Promoting best practice in benchmarking is its main goal. The article discusses eight essential topics in benchmarking: clearly stated goals, well-specified problems, suitable algorithms, adequate performance measures, thoughtful analysis, effective and efficient designs, comprehensible presentations, and guaranteed reproducibility. The final goal is to provide well-accepted guidelines (rules) that might be useful for authors and reviewers. As benchmarking in optimization is an active and evolving field of research this manuscript is meant to co-evolve over time by means of periodic *** Codes 68W50. Copyright © 2020, The Authors. All rights reserved.

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COVID-19 Contact Tracing: Eight Privacy Questions Explored

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arXiv 2020年

作者： Lawson-Tancred, Hugh Price, Henry C.W. Provetti, Alessandro Birbeck University of London Institute for Data Analytics LondonWC1E 7HX United Kingdom Imperial College Centre for Complexity Science and Theoretical Physics Group LondonSW7 2AZ United Kingdom Birbeck University of London Department of Computer Science and Information Systems LondonWC1E 7HX United Kingdom

We respond to a recent short paper by de Motjoye et el. on privacy issues with Covid-19 tracking. Their paper, which we discuss here, is structured around three "toy protocols" for the design of an app which can maximise the utility of contact tracing information while minimising the more general risk to privacy. On this basis, the paper proceeds to introduce eight questions against which they should be assessed. The questions raised and the protocols proposed effectively amount to the creation of a game with different categories of players able to make different moves. It is therefore possible to analyse the model in terms of optimal game design. Copyright © 2020, The Authors. All rights reserved.

关键词： Toys

Retraction notice to “Neural network-based optimization of hydrogen fuel production energy system with proton exchange electrolyzer supported nanomaterial” [Fuel 332 (2023) 125827]

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Fuel 2025年 391卷

作者： Tao Hai Kosar Hikmat Hama Aziz Jincheng Zhou Hayder A. Dhahad Kamal Sharma Sattam Fahad Almojil Abdulaziz Ibrahim Almohana Abdulrhman Fahmi Alali Teeba Ismail Kh Sadok Mehrez Anas Abdelrahman School of Computer and Information Qiannan Normal University for Nationalities Duyun Guizhou 558000 China Key Laboratory of Complex Systems and Intelligent Optimization of Guizhou Duyun Guizhou 558000 China Institute for Big Data Analytics and Artificial Intelligence (IBDAAI) Universiti Teknologi MARA Shah Alam Selangor 40450 Malaysia Department of Chemistry College of Science University of Sulaimani Qlyasan Street Kurdistan Region 46001 Iraq Department of Medical Laboratory of Science College of Health Sciences University of Human Development Sulaimaniyah Iraq Key Laboratory of Complex Systems and Intelligent Optimization of Qiannan Duyun 558000 China Mechanical Engineering Department University of Technology Baghdad Iraq Institute of Engineering and Technology GLA University Mathura Uttar Pradesh 281406 India Department of Civil Engineering College of Engineering King Saud University P.O. Box 800 Riyadh 11421 Saudi Arabia Department of Computer Engineering College of Engineering and Computer Science Lebanese French University Kurdistan Region Iraq Department of Mechanical Engineering College of Engineering at Al Kharj Prince Sattam bin Abdulaziz University 16273 Saudi Arabia Department of Mechanical Engineering University of Tunis El Manar ENIT BP 37 Le Belv’ed‘ere Tunis 1002 Tunisia Department of Chemical Engineering Faculty of Engineering & Technology Future University in Egypt New Cairo 11500 Tunisia

ON-OFF Neuromorphic ISING Machines using Fowler-Nordheim Annealers

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arXiv 2024年

作者： Chen, Zihao Xiao, Zhili Akl, Mahmoud Leugring, Johannes Olajide, Omowuyi Malik, Adil Dennler, Nik Harper, Chad Bose, Subhankar Gonzalez, Hector A. Eshraghian, Jason Pignari, Riccardo Urgese, Gianvito Andreou, Andreas G. Shankar, Sadasivan Mayr, Christian Cauwenberghs, Gert Chakrabartty, Shantanu Department of Electrical and Systems Engineering Washington University in St. Louis One Brookings Drive St. LouisMO63130 United States Department of Bioengineering University of California 9500 Gilman Dr La Jolla San DiegoCA92093 United States SpiNNcloud Systems GmbH Freibergerstr. 37 Dresden01067 Germany Department of Electrical and computer engineering Johns Hopkins University 3400 N. Charles Street BaltimoreMD21218 United States SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo ParkCA94025 United States Department of Electrical and Electronic Engineering Imperial College London Exhibition Rd LondonSW7 2AZ United Kingdom International Centre for Neuromorphic Engineering Western Sydney University Penrith Second Ave KingswoodNSW2747 Australia Department of Physics University of California Berkeley University Avenue and Oxford St BerkeleyCA94720 United States Department of Electrical and Computer Engineering University of California Santa Cruz 1156 High Street Santa CruzCA95064 United States Politecnico di Torino Address: Corso Duca degli Abruzzi 24 Torino10129 Italy Redwood Center for Theoretical Neuroscience Helen Wills Neuroscience Institute University of California Berkeley University Avenue and Oxford St BerkeleyCA94720 United States Biocomputation Group University of Hertfordshire Exhibition Rd LondonSW7 2AZ United Kingdom Materials Science and Engineering Stanford University 450 Jane Stanford Way StanfordCA94305 United States Highly-Parallel VLSI-Systems and Neuro-Microelectronics Technische Universität Dresden Mommsenstraße 12 Dresden01069 Germany Scads.AI: Center for scalable data analytics and artificial intelligence Strehlener Street 12 14 Dresden01069 Germany

We introduce NeuroSA, a neuromorphic architecture specifically designed to ensure asymptotic convergence to the ground state of an Ising problem using an annealing process that is governed by the physics of quantum mechanical tunneling using Fowler-Nordheim (FN). The core component of NeuroSA consists of a pair of asynchronous ON-OFF neurons, which effectively map classical simulated annealing (SA) dynamics onto a network of integrate-and-fire (IF) neurons. The threshold of each ON-OFF neuron pair is adaptively adjusted by an FN annealer which replicates the optimal escape mechanism and convergence of SA, particularly at low temperatures. To validate the effectiveness of our neuromorphic Ising machine, we systematically solved various benchmark MAX-CUT combinatorial optimization problems. Across multiple runs, NeuroSA consistently generates solutions that approach the state-of-the-art level with high accuracy (greater than 99%), and without any graph-specific hyperparameter tuning. For practical illustration, we present results from an implementation of NeuroSA on the SpiNNaker2 platform, highlighting the feasibility of mapping our proposed architecture onto a standard neuromorphic accelerator platform. © 2024, CC BY-NC-SA.

关键词： Simulated annealing

Harnessing multimodal approaches for depression detection using large language models and facial expressions

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npj Mental Health Research

npj Mental Health Research 2024年第1期3卷 1-14页

作者： Sadeghi, Misha Richer, Robert Egger, Bernhard Schindler-Gmelch, Lena Rupp, Lydia Helene Rahimi, Farnaz Berking, Matthias Eskofier, Bjoern M. Machine Learning and Data Analytics Lab (MaD Lab) Department Artificial Intelligence in Biomedical Engineering (AIBE) Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU) Erlangen 91052 Germany Chair of Visual Computing (LGDV) Department of Computer Science Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU) Erlangen 91058 Germany Chair of Clinical Psychology and Psychotherapy (KliPs) Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU) Erlangen 91052 Germany Translational Digital Health Group Institute of AI for Health Helmholtz Zentrum München - German Research Center for Environmental Health Neuherberg 85764 Germany

Detecting depression is a critical component of mental health diagnosis, and accurate assessment is essential for effective treatment. This study introduces a novel, fully automated approach to predicting depression severity using the E-DAIC dataset. We employ Large Language Models (LLMs) to extract depression-related indicators from interview transcripts, utilizing the Patient Health Questionnaire-8 (PHQ-8) score to train the prediction model. Additionally, facial data extracted from video frames is integrated with textual data to create a multimodal model for depression severity prediction. We evaluate three approaches: text-based features, facial features, and a combination of both. Our findings show the best results are achieved by enhancing text data with speech quality assessment, with a mean absolute error of 2.85 and root mean square error of 4.02. This study underscores the potential of automated depression detection, showing text-only models as robust and effective while paving the way for multimodal analysis. © The Author(s) 2024.

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Infectious disease surveillance needs for the United States: lessons from COVID-19

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arXiv 2023年

作者： Lipsitch, Marc Bassett, Mary T. Brownstein, John S. Elliott, Paul Eyre, David Grabowski, M. Kate Hay, James A. Johansson, Michael Kissler, Stephen M. Larremore, Daniel B. Layden, Jennifer Lessler, Justin Lynfield, Ruth MacCannell, Duncan Madoff, Lawrence C. Metcalf, Jessica E. Meyers, Lauren A. Ofori, Sylvia K. Quinn, Celia Ramos Bento, Ana I. Reich, Nick Riley, Steven Rosenfeld, Roni Samore, Matthew H. Sampath, Rangarajan Slayton, Rachel B. Swerdlow, David L. Truelove, Shaun Varma, Jay K. Grad, Yonatan H. Center for Forecasting and Outbreak Analytics US Centers for Disease Control and Prevention AtlantaGA United States Center for Communicable Disease Dynamics Department of Epidemiology Harvard T.H. Chan School of Public Health BostonMA United States François-Xavier Bagnoud Center for Health and Human Rights Department of Social and Behavioral Sciences The Harvard T.H. Chan School of Public Health BostonMA United States Boston Children’s Hospital Harvard Medical School BostonMA United States Department of Epidemiology and Public Health Medicine Imperial College London London United Kingdom Big Data Institute Nuffield Department of Population Health University of Oxford Oxford United Kingdom Department of Epidemiology Bloomberg School of Public Health Johns Hopkins University BaltimoreMD United States Division of Vector-Borne Diseases US Centers for Disease Control and Prevention San JuanPR United States Department of Computer Science University of Colorado Boulder BoulderCO United States BioFrontiers Institute University of Colorado Boulder BoulderCO United States Office of Public Health Data Surveillance and Technology US Centers for Disease Control and Prevention AtlantaGA United States Department of Epidemiology UNC Gillings School of Public Health Chapel HillNC United States Minnesota Department of Health MinneapolisMN United States Office of Advanced Molecular Detection US Centers for Disease Control and Prevention AtlantaGA United States Massachusetts Department of Public Health BostonMA United States Department of Ecology and Evolutionary Biology Princeton University PrincetonNJ United States Department of Integrative Biology University of Texas at Austin AustinTX United States Division of Disease Control New York City Department of Health and Mental Hygiene New York CityNY United States Pandemic Prevention Initiative The Rockefeller Foundation WashingtonDC United States Department of Biostatistics University of Massachusetts Amh

The COVID-19 pandemic has highlighted the need to upgrade systems for infectious disease surveillance and forecasting and modeling of the spread of infection, both of which inform evidence-based public health guidance and policies. Here, we discuss requirements for an effective surveillance system to support decision making during a pandemic, drawing on the lessons of COVID-19 in the U.S., while looking to jurisdictions in the U.S. and beyond to learn lessons about the value of specific data types. In this report, we define the range of decisions for which surveillance data are required, the data elements needed to inform these decisions and to calibrate inputs and outputs of transmission-dynamic models, and the types of data needed to inform decisions by state, territorial, local, and tribal health authorities. We define actions needed to ensure that such data will be available and consider the contribution of such efforts to improving health equity. © 2023, CC BY.

关键词： COVID-19

Pooling Approach for Task Allocation in the Blockchain Based Decentralized Storage Network

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Pooling Approach for Task Allocation in the Blockchain Based...

International Conference on Network and Service Management

作者： Iman Vakilinia Shahin Vakilinia Shahriar Badsha Engin Arslan Shamik Sengupta School of Computing University of North Florida Jacksonville FL USA yPwC Data Analytics Team Montreal QC CA Computer Science and Engineering Department University of Nevada Reno NV USA

ISBN: (数字)9783903176249

ISBN: (纸本)9781728153964

Blockchain technology has provided a solid system to develop incentivization algorithms using the smart contract. Blockchain applies the distributed ledger to store transaction histories, and the information is stored across a network of computers instead of on a single server. This facilitates the development of a new set of applications such as distributed file storage systems where users can rent out their storage in return for a premium. The distributed file storage systems provide more privacy and security compared to the centralized storage models as there is no need to have a trusted party. New schemes have been developed for distributed file storage systems on top of the blockchain platform, however, the problem of task/service allocation in these models have not been studied before. In this paper, we study the task/service allocation in the distributed file storage systems considering the challenge of computation cost. First, we formalize the problem of task/service allocation in a decentralized storage network, and then we discuss different approaches to allocate storage tasks to storage servers in an efficient manner. Moreover, we study the benefits of the cooperation (a.k.a pooling) in the storage and retrieval markets of distributed storage networks. The evaluation results show the benefit of our proposed pooling based approach in storage and retrieval markets.

关键词： Task analysis Servers Contracts Resource management Computational modeling Internet