检索结果-内蒙古大学图书馆

arXiv 2023年

作者： Graham, Simon Vu, Quoc Dang Jahanifar, Mostafa Weigert, Martin Schmidt, Uwe Zhang, Wenhua Zhang, Jun Yang, Sen Xiang, Jinxi Wang, Xiyue Rumberger, Josef Lorenz Baumann, Elias Hirsch, Peter Liu, Lihao Hong, Chenyang Aviles-Rivero, Angelica I. Jain, Ayushi Ahn, Heeyoung Hong, Yiyu Azzuni, Hussam Xu, Min Yaqub, Mohammad Blache, Marie-Claire Piégu, Benoît Vernay, Bertrand Scherr, Tim Böhland, Moritz Löffler, Katharina Li, Jiachen Ying, Weiqin Wang, Chixin Snead, David Raza, Shan E. Ahmed Minhas, Fayyaz Rajpoot, Nasir M. Tissue Image Analytics Centre University of Warwick Coventry United Kingdom Histofy Ltd Birmingham United Kingdom Institute of Bioengineering School of Life Sciences Epfl Lausanne Switzerland Dresden Germany The Department of Computer Science The University of Hong Kong Hong Kong Tencent Ai Lab Shenzhen China College of Biomedical Engineering Sichuan University Chengdu China Department of Precision Instruments Tsinghua University Beijing China College of Computer Science Sichuan University Chengdu China Max-Delbrueck-Center for Molecular Medicine in the Helmholtz Association Berlin Germany Humboldt University of Berlin Faculty of Mathematics and Natural Sciences Berlin Germany Charité University Medicine Berlin Germany University of Bern Bern Switzerland Department of Applied Mathematics and Theoretical Physics University of Cambridge United Kingdom Department of Computer Science and Engineering Chinese University of Hong Kong Hong Kong Softsensor.ai BridgewaterNJ United States PRR.ai TX United States Department of R&d Center Arontier Co. Ltd Seoul Korea Republic of Computer Vision Department Mohamed Bin Zayed University of Artificial Intelligence Abu Dhabi United Arab Emirates Cnrs Ifce Inrae Université de Tours Prc Nouzilly3780 France Institut de Génétique et de Biologie Moléculaire et Cellulaire Illkirch France Centre National de la Recherche Scientifique UMR7104 Illkirch France Institut National de la Santé et de la Recherche Médicale Inserm U1258 Illkirch France Université de Strasbourg Strasbourg France Institute for Automation and Applied Informatics Karlsruhe Institute of Technology Eggenstein-Leopoldshafen Germany School of Software Engineering South China University of Technology Guangzhou China Department of Pathology University Hospitals Coventry Warwickshire Nhs Trust Coventry United Kingdom Division of Biomedical Sciences Warwick Medical School University of Warwick Coventry United Kingdom

Nuclear detection, segmentation and morphometric profiling are essential in helping us further understand the relationship between histology and patient outcome. To drive innovation in this area, we setup a community-wide challenge using the largest available dataset of its kind to assess nuclear segmentation and cellular composition. Our challenge, named CoNIC, stimulated the development of reproducible algorithms for cellular recognition with real-time result inspection on public leaderboards. We conducted an extensive post-challenge analysis based on the top-performing models using 1,658 whole-slide images of colon tissue. With around 700 million detected nuclei per model, associated features were used for dysplasia grading and survival analysis, where we demonstrated that the challenge's improvement over the previous state-of-the-art led to significant boosts in downstream performance. Our findings also suggest that eosinophils and neutrophils play an important role in the tumour microevironment. We release challenge models and WSI-level results to foster the development of further methods for biomarker discovery. © 2023, CC BY-NC-SA.

关键词： Grading

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Considerations and recommendations from the ISMRM Diffusion Study Group for preclinical diffusion MRI: Part 3 — Ex vivo imaging: data processing, comparisons with microscopy, and tractography

arXiv

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arXiv 2024年

作者： Schilling, Kurt G. Howard, Amy F.D. Grussu, Francesco Ianus, Andrada Hansen, Brian Barrett, Rachel L.C. Aggarwal, Manisha Michielse, Stijn Nasrallah, Fatima Syeda, Warda Wang, Nian Veraart, Jelle Roebroeck, Alard Bagdasarian, Andrew F. Eichner, Cornelius Sepehrband, Farshid Zimmermann, Jan Soustelle, Lucas Bowman, Christien Tendler, Benjamin C. Hertanu, Andreea Jeurissen, Ben Verhoye, Marleen Frydman, Lucio van de Looij, Yohan Hike, David Dunn, Jeff F. Miller, Karla Landman, Bennett A. Shemesh, Noam Anderson, Adam McKinnon, Emilie Farquharson, Shawna Dell' Acqua, Flavio Pierpaoli, Carlo Drobnjak, Ivana Leemans, Alexander Harkins, Kevin D. Descoteaux, Maxime Xu, Duan Huang, Hao Santin, Mathieu D. Grant, Samuel C. Obenaus, Andre Kim, Gene S. Wu, Dan Le Bihan, Denis Blackband, Stephen J. Ciobanu, Luisa Fieremans, Els Bai, Ruiliang Leergaard, Trygve B. Zhang, Jiangyang Dyrby, Tim B. Johnson, G. Allan Cohen-Adad, Julien Budde, Matthew D. Jelescu, Ileana O. Radiology and Radiological Sciences Vanderbilt University Medical Center NashvilleTN United States Vanderbilt University Institute of Imaging Science Vanderbilt University NashvilleTN United States Department of Bioengineering Imperial College London London United Kingdom FMRIB Centre Wellcome Centre for Integrative Neuroimaging Nuffield Department of Clinical Neurosciences University of Oxford Oxford United Kingdom Radiomics Group Vall d’Hebron Institute of Oncology Vall d’Hebron Barcelona Hospital Campus Barcelona Spain Queen Square MS Centre Queen Square Institute of Neurology Faculty of Brain Sciences University College London London United Kingdom Champalimaud Research Champalimaud Foundation Lisbon Portugal Center of Functionally Integrative Neuroscience Aarhus University Aarhus Denmark Department of Neuroimaging Institute of Psychiatry Psychology and Neuroscience King's College London London United Kingdom NatBrainLab Department of Forensics and Neurodevelopmental Sciences Institute of Psychiatry Psychology and Neuroscience King's College London London United Kingdom Russell H. Morgan Department of Radiology and Radiological Science Johns Hopkins University School of Medicine BaltimoreMD United States Maastricht University Medical Center Maastricht Netherlands The Queensland Brain Institute The University of Queensland Queensland Australia Melbourne Neuropsychiatry Centre The University of Melbourne ParkvilleVIC Australia Department of Radiology and Imaging Sciences Indiana University IN United States Stark Neurosciences Research Institute Indiana University School of Medicine IN United States Center for Biomedical Imaging NYU Grossman School of Medicine New YorkNY United States Faculty of psychology and Neuroscience Maastricht University Maastricht Netherlands Department of Chemical & Biomedical Engineering FAMU-FSU College of Engineering Florida State University TallahasseeFL United States Center for Interdisciplinary Magnetic Res

Preclinical diffusion MRI (dMRI) has proven value in methods development and validation, characterizing the biological basis of diffusion phenomena, and comparative anatomy. While dMRI enables in vivo non-invasive characterization of tissue, ex vivo dMRI is increasingly being used to probe tissue microstructure and brain connectivity. Ex vivo dMRI has several experimental advantages that facilitate high spatial resolution and high signal-to-noise ratio (SNR) images, cutting-edge diffusion contrasts, and direct comparison with histological data as a methodological validation. However, there are a number of considerations that must be made when performing ex vivo experiments. The steps from tissue preparation, image acquisition and processing, and interpretation of results are complex, with many decisions that not only differ dramatically from in vivo imaging of small animals, but ultimately affect what questions can be answered using the data. This work concludes a 3-part series of recommendations and considerations for preclinical dMRI. Herein, we describe best practices for dMRI of ex vivo tissue, with a focus on image pre-processing, data processing and model fitting, and tractography. In each section, we attempt to provide guidelines and recommendations, but also highlight areas for which no guidelines exist (and why), and where future work should lie. We end by providing guidelines on code sharing and data sharing, and point towards open-source software and databases specific to small animal and ex vivo imaging. © 2024, CC BY.

关键词： Data Sharing

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Metrics Reloaded: Recommendations for image analysis validation

arXiv

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arXiv 2022年

作者： Maier-Hein, Lena Reinke, Annika Godau, Patrick Tizabi, Minu D. Buettner, Florian Christodoulou, Evangelia Glocker, Ben Isensee, Fabian Kleesiek, Jens Kozubek, Michal Reyes, Mauricio Riegler, Michael A. Wiesenfarth, Manuel Emre Kavur, A. Sudre, Carole H. Baumgartner, Michael Eisenmann, Matthias Heckmann-Nötzel, Doreen Rädsch, Tim Acion, Laura Antonelli, Michela Arbel, Tal Bakas, Spyridon Benis, Arriel Blaschko, Matthew B. Jorge Cardoso, M. Cheplygina, Veronika Cimini, Beth A. Collins, Gary S. Farahani, Keyvan Ferrer, Luciana Galdran, Adrian Ginneken, Bram Van Haase, Robert Hashimoto, Daniel A. Hoffman, Michael M. Huisman, Merel Jannin, Pierre Kahn, Charles E. Kainmueller, Dagmar Kainz, Bernhard Karargyris, Alexandros Karthikesalingam, Alan Kenngott, Hannes Kofler, Florian Kopp-Schneider, Annette 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 Rajpoot, Nasir Rieke, Nicola Saez-Rodriguez, Julio Sánchez, Clara I. Shetty, Shravya Smeden, Maarten Van Summers, Ronald M. Taha, Abdel A. Tiulpin, Aleksei Tsaftaris, Sotirios A. Calster, Ben Van Varoquaux, Gaël Jäger, Paul F. Heidelberg Division of Intelligent Medical Systems and HI Helmholtz Imaging Germany Faculty of Mathematics and Computer Science and Medical Faculty Heidelberg University Heidelberg Germany NCT Heidelberg a partnership between DKFZ University Medical Center Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Heidelberg Division of Intelligent Medical Systems Germany partner site Frankfurt/Mainz a partnership between DKFZ and UCT Frankfurt-Marburg Germany Heidelberg Goethe University Frankfurt Germany Department of Medicine Goethe University Frankfurt Germany Department of Informatics Frankfurt Cancer Insititute Germany Department of Computing Imperial College London London United Kingdom Heidelberg Division of Medical Image Computing and HI Applied Computer Vision Lab Germany Institute for AI in Medicine University Medicine Essen Essen Germany Centre for Biomedical Image Analysis Faculty of Informatics Masaryk University Brno Czech Republic ARTORG Center for Biomedical Engineering Research University of Bern Bern Switzerland Department of Radiation Oncology University Hospital Bern University of Bern Bern Switzerland Simula Metropolitan Center for Digital Engineering Oslo Norway UiT The Arctic University of Norway Romsø Norway Heidelberg Division of Biostatistics Germany Heidelberg Division of Intelligent Medical Systems Division of Medical Image Computing HI Applied Computer Vision Lab 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 Heidelberg Division of Medical Image Computing Germany Instituto de Cálculo CONICET – Universidad de Buenos Aires Buenos Aires Argentina Centre for Medical Image Computing University College London London United Kingdom McGill University Montréal

Increasing evidence shows that flaws in machine learning (ML) algorithm validation are an underestimated global problem. Particularly in automatic biomedical image analysis, chosen performance metrics often do not reflect the domain interest, thus failing to adequately measure scientific progress and hindering translation of ML techniques into practice. To overcome this, we created Metrics Reloaded, a comprehensive framework guiding researchers in the problem-aware selection of metrics. It was developed by a large international consortium in a multi-stage Delphi process and is based on the novel concept of a problem fingerprint – a structured representation of the given problem that captures all aspects that are relevant for metric selection, from the domain interest to the properties of the target structure(s), data set and algorithm output. Based on the problem fingerprint, users are guided through the process of choosing and applying appropriate validation metrics while being made aware of potential pitfalls. Metrics Reloaded targets image analysis problems that can be interpreted as a classification task at image, object or pixel level, namely image-level classification, object detection, semantic segmentation, and instance segmentation tasks. To improve the user experience, we implemented the framework in the Metrics Reloaded online tool. Following the convergence of ML methodology across application domains, Metrics Reloaded fosters the convergence of validation methodology. Its applicability is demonstrated for various biomedical use cases. © 2022, CC BY.

关键词： Semantic Segmentation

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Assessing Trustworthy AI in Times of COVID-19: Deep Learning for Predicting a Multiregional Score Conveying the Degree of Lung Compromise in COVID-19 Patients

IEEE Transactions on Technology and Society

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IEEE Transactions on Technology and Society 2022年第4期3卷 272-289页

作者： Allahabadi, Himanshi Amann, Julia Balot, Isabelle Beretta, Andrea Binkley, Charles Bozenhard, Jonas Bruneault, Frederick Brusseau, James Candemir, Sema Cappellini, Luca Alessandro Chakraborty, Subrata Cherciu, Nicoleta Cociancig, Christina Coffee, Megan Ek, Irene Espinosa-Leal, Leonardo Farina, Davide Fieux-Castagnet, Genevieve Frauenfelder, Thomas Gallucci, Alessio Giuliani, Guya Golda, Adam Van Halem, Irmhild Hildt, Elisabeth Holm, Sune Kararigas, Georgios Krier, Sebastien A. Kuhne, Ulrich Lizzi, Francesca Madai, Vince I. Markus, Aniek F. Masis, Serg Mathez, Emilie Wiinblad Mureddu, Francesco Neri, Emanuele Osika, Walter Ozols, Matiss Panigutti, Cecilia Parent, Brendan Pratesi, Francesca Moreno-Sanchez, Pedro A. Sartor, Giovanni Savardi, Mattia Signoroni, Alberto Sormunen, Hanna-Maria Spezzatti, Andy Srivastava, Adarsh Stephansen, Annette F. Theng, Lau Bee Tithi, Jesmin Jahan Tuominen, Jarno Umbrello, Steven Vaccher, Filippo Vetter, Dennis Westerlund, Magnus Wurth, Renee Zicari, Roberto V. Ey Netherlands Enterprise Intelligence Department Amsterdam1083 HP Netherlands Eth Zurich Health Ethics and Policy Lab Department of Health Sciences and Technology Zürich8092 Switzerland Center for Diplomatic and Strategic Studies Postgraduate Studies in Diplomacy and International Relations Paris75015 France Pisa56124 Italy Hackensack Meridian Health Bioethics Center EdisonNJ08820 United States University of Oxford Faculty of Philosophy OxfordOX2 6GG United Kingdom Collège André- Laurendeau Philosophie Department MontrealQCH8N 2J4 Canada Université du Québec À Montréal École des Médias MontrealQCH2L 2C4 Canada Pace University Philosophy Department New YorkNY10038 United States The Ohio State University Wexner Medical Center Department of Radiology ColumbusOH43210 United States Humanitas Research Hospital Department of Radiology Milan20089 Italy Humanitas University Department of Biomedical Sciences Milan20089 Italy University of New England Faculty of Science Agriculture Business and Law ArmidaleNSW2351 Australia University of Technology Sydney Faculty of Engineering and Information Technology SydneyNSW2007 Australia Scuola Superiore Sant'Anna European Centre of Excellence on the Regulation of Robotics and Ai Pisa56127 Italy University of Bremen Group of Computer Architecture Bremen28359 Germany New York University Grossman School of Medicine Division of Infectious Diseases and Immunology Department of Medicine New YorkNY10016 United States Digital Institute Ai Research Section Stockholm16731 Sweden Arcada University of Applied Sciences Department of Business Management and Analytics Helsinki00550 Finland University of Brescia Radiological Sciences and Public Health Department of Medical and Surgical Specialties Brescia25121 Italy Sncf Reseau Sa Ethique Groupe La Plaine93418 France Institute of Diagnostic and Interventional Radiology University Hospital Zurich Zürich8091 Switzerland Eindhoven University of Tech

This article's main contributions are twofold: 1) to demonstrate how to apply the general European Union's High-Level Expert Group's (EU HLEG) guidelines for trustworthy AI in practice for the domain of healthcare and 2) to investigate the research question of what does 'trustworthy AI' mean at the time of the COVID-19 pandemic. To this end, we present the results of a post-hoc self-assessment to evaluate the trustworthiness of an AI system for predicting a multiregional score conveying the degree of lung compromise in COVID-19 patients, developed and verified by an interdisciplinary team with members from academia, public hospitals, and industry in time of pandemic. The AI system aims to help radiologists to estimate and communicate the severity of damage in a patient's lung from Chest X-rays. It has been experimentally deployed in the radiology department of the ASST Spedali Civili clinic in Brescia, Italy, since December 2020 during pandemic time. The methodology we have applied for our post-hoc assessment, called Z-Inspection®, uses sociotechnical scenarios to identify ethical, technical, and domain-specific issues in the use of the AI system in the context of the pandemic. © 2020 IEEE.

关键词： COVID-19

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PitVis-2023 Challenge: Workflow Recognition in videos of Endoscopic Pituitary Surgery

arXiv

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arXiv 2024年

作者： Das, Adrito Khan, Danyal Z. Psychogyios, Dimitrios Zhang, Yitong Hanrahan, John G. Vasconcelos, Francisco Pang, You Chen, Zhen Wu, Jinlin Zou, Xiaoyang Zheng, Guoyan Qayyum, Abdul Mazher, Moona Razzak, Imran Li, Tianbin Ye, Jin He, Junjun Plotka, Szymon Kaleta, Joanna Yamlahi, Amine Jund, Antoine Godau, Patrick Kondo, Satoshi Kasai, Satoshi Hirasawa, Kousuke Rivoir, Dominik Pérez, Alejandra Rodriguez, Santiago Arbeláez, Pablo Stoyanov, Danail Marcus, Hani J. Bano, Sophia Wellcome EPSRC Centre for Interventional and Surgical Sciences University College London London United Kingdom Department of Neurosurgery National Hospital for Neurology and Neurosurgery London United Kingdom HKISI CAS China Institute of Medical Robotics School of Biomedical Engineering Shanghai Jiao Tong University Shanghai China National Heart and Lung Institute Faculty of Medicine Imperial College London United Kingdom Centre for Medical Image Computing University College London London United Kingdom University of New South Wales Sydney Australia Shanghai AI Lab Shanghai China Informatics Institute University of Amsterdam Amsterdam Netherlands Department of Biomedical Engineering and Physics Amsterdam University Medical Center University of Amsterdam Amsterdam Netherlands Sano Center for Computational Medicine Krakow Poland Heidelberg Division of Intelligent Medical Systems Germany NCT Heidelberg a partnership between DKFZ University Hospital Heidelberg Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Muroran Institute of Technology Hokkaido Japan Niigata University of Health and Welfare Niigata Japan Konica Minolta Inc. Osaka Japan National Center for Tumor Diseases Dresden Germany Centre for Tactile Internet TUD Dresden Germany Universidad de los Andes Bogota Colombia DKFZ UKDD TUD Germany

The field of computer vision applied to videos of minimally invasive surgery is ever-growing. Workflow recognition pertains to the automated recognition of various aspects of a surgery: including which surgical steps are performed;and which surgical instruments are used. This information can later be used to assist clinicians when learning the surgery;during live surgery;and when writing operation notes. The Pituitary Vision (PitVis) 2023 Challenge tasks the community to step and instrument recognition in videos of endoscopic pituitary surgery. This is a unique task when compared to other minimally invasive surgeries due to the smaller working space, which limits and distorts vision;and higher frequency of instrument and step switching, which requires more precise model predictions. Participants were provided with 25-videos, with results presented at the MICCAI-2023 conference as part of the Endoscopic Vision 2023 Challenge in Vancouver, Canada, on 08-Oct-2023. There were 18-submissions from 9-teams across 6-countries, using a variety of deep learning models. A commonality between the top performing models was incorporating spatio-temporal and multi-task methods, with greater than 50% and 10% macro-F1-score improvement over purely spacial single-task models in step and instrument recognition respectively. The PitVis-2023 Challenge therefore demonstrates state-of-the-art computer vision models in minimally invasive surgery are transferable to a new dataset, with surgery specific techniques used to enhance performance, progressing the field further. Benchmark results are provided in the paper, and the dataset is publicly available at: https://***/10.5522/04/26531686. Copyright © 2024, The Authors. All rights reserved.

关键词： Endoscopy

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Cardiac segmentation on late gadolinium enhancement MRI: A benchmark study from multi-sequence cardiac MR segmentation challenge

arXiv

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arXiv 2020年

作者： Zhuang, Xiahai Xu, Jiahang Luo, Xinzhe Chen, Chen Ouyang, Cheng Rueckert, Daniel Campello, Victor M. Lekadir, Karim Vesal, Sulaiman RaviKumar, Nishant Liu, Yashu Luo, Gongning Chen, Jingkun Li, Hongwei Ly, Buntheng Sermesant, Maxime Roth, Holger Zhu, Wentao Wang, Jiexiang Ding, Xinghao Wang, Xinyue Yang, Sen Li, Lei School of Data Science Fudan University Shanghai China School of Biomedical Engineering Shanghai Jiao Tong University Shanghai China Biomedical Image Analysis Group Imperial College London London United Kingdom Department Mathematics & Computer Science Universitat de Barcelona Barcelona Spain Friedrich-Alexander-Universität Erlangen-Nürnberg Germany School of Computer Science and Technology Harbin Institute of Technology Harbin China Department of Computer Science and Engineering Southern University of Science and Technology Shenzhen China Department of Informatics Technical University of Munich Germany INRIA Université Côte d’Azur Sophia Antipolis France NVIDIA Bethesda United States School of Informatics Xiamen University Xiamen China College of Electrical Engineering Sichuan University Chengdu China Tencent AI Lab Shenzhen China

Accurate computing, analysis and modeling of the ventricles and myocardium from medical images are important, especially in the diagnosis and treatment management for patients suffering from myocardial infarction (MI). Late gadolinium enhancement (LGE) cardiac magnetic resonance (CMR) provides an important protocol to visualize MI. However, automated segmentation of LGE CMR is still challenging, due to the indistinguishable boundaries, heterogeneous intensity distribution and complex enhancement patterns of pathological myocardium from LGE CMR. Furthermore, compared with the other sequences LGE CMR images with gold standard labels are particularly limited, which represents another obstacle for developing novel algorithms for automatic segmentation of LGE CMR. This paper presents the selective results from the Multi-Sequence Cardiac MR (MS-CMR) Segmentation challenge, in conjunction with MICCAI 2019. The challenge offered a data set of paired MS-CMR images, including auxiliary CMR sequences as well as LGE CMR, from 45 patients who underwent cardiomyopathy. It was aimed to develop new algorithms, as well as benchmark existing ones for LGE CMR segmentation and compare them objectively. In addition, the paired MS-CMR images could enable algorithms to combine the complementary information from the other sequences for the segmentation of LGE CMR. Nine representative works were selected for evaluation and comparisons, among which three methods are unsupervised methods and the other six are supervised. The results showed that the average performance of the nine methods was comparable to the inter-observer variations. Particularly, the top-ranking algorithms from both the supervised and unsupervised methods could generate reliable and robust segmentation results. The success of these methods was mainly attributed to the inclusion of the auxiliary sequences from the MS-CMR images, which provide important label information for the training of deep neural networks. The challeng

关键词： Magnetic resonance

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Automatic Intelligent System Using Medical of Things for Multiple Sclerosis Detection

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Computational intelligence and neuroscience 2023年第1期2023卷 4776770页

作者： Sujatha Krishnamoorthy Yaxi Zhang Seifedine Kadry Muhammad Attique Khan Majed Alhaisoni Nasser Mustafa Weifeng Yu Abdullah Alqahtani Zhejiang Bioinformatics International Science and Technology Cooperation Center Wenzhou-Kean University Wenzhou Zhejiang Province China. Wenzhou Municipal Key Lab of Applied Biomedical and Biopharmaceutical Informatics Wenzhou-Kean University Wenzhou Zhejiang Province China. Department of Neurology Wenzhou Central Hospital Medical Group Wenzhou 325000 China. Department of Applied Data Science Noroff University College Kristiansand Norway. Artificial Intelligence Research Center (AIRC) Ajman University Ajman 346 UAE. Department of Electrical and Computer Engineering Lebanese American University Byblos Lebanon. Department of Computer Science HITEC University Taxila Pakistan. Computer Sciences Department College of Computer and Information Sciences Princess Nourah Bint Abdulrahman University Riyadh 11671 Saudi Arabia. Wenzhou-Kean University School of Science and Technology Wenzhou Zhejiang Province China. College of Computer Engineering and Sciences Prince Sattam Bin Abdulaziz University Al-Kharj Saudi Arabia.

Malfunctions in the immune system cause multiple sclerosis (MS), which initiates mild to severe nerve damage. MS will disturb the signal communication between the brain and other body parts, and early diagnosis will help reduce the harshness of MS in humankind. Magnetic resonance imaging (MRI) supported MS detection is a standard clinical procedure in which the bio-image recorded with a chosen modality is considered to assess the severity of the disease. The proposed research aims to implement a convolutional neural network (CNN) supported scheme to detect MS lesions in the chosen brain MRI slices. The stages of this framework include (i) image collection and resizing, (ii) deep feature mining, (iii) hand-crafted feature mining, (iii) feature optimization with firefly algorithm, and (iv) serial feature integration and classification. In this work, five-fold cross-validation is executed, and the final result is considered for the assessment. The brain MRI slices with/without the skull section are examined separately, presenting the attained results. The experimental outcome of this study confirms that the VGG16 with random forest (RF) classifier offered a classification accuracy of >98% MRI with skull, and VGG16 with K-nearest neighbor (KNN) provided an accuracy of >98% without the skull.

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Explainable AI: Definition and attributes of a good explanation for health AI

arXiv

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arXiv 2024年

作者： Kyrimi, Evangelia McLachlan, Scott Wohlgemut, Jared M. Perkins, Zane B. Lagnado, David A. Marsh, William Gimson, Alexander Shafti, Ali Ercole, Ari Banerjee, Amitava Glocker, Ben Schafer, Burkhard Gatsonis, Constantine Grosan, Crina Sent, Danielle Berman, David S. Glass, David O'Regan, Declan P. Letsios, Dimitrios Morrissey, Dylan Pisirir, Erhan Leofante, Francesco Soyel, Hamit Williamson, Jon Grieman, Keri Dube, Kudakwashe Mardsen, Max Nagendran, Myura Tai, Nigel Kostopoulou, Olga Jones, Owain Curzon, Paul Stoner, Rebecca S. Tandle, Sankalp Joshi, Shalmali Mossadegh, Somayyeh Buijsman, Stefan Miller, Tim Madai, Vince Istvan School of Electronic Engineering and Computer Science Queen Mary University of London London United Kingdom School of Nursing Midwifery and Palliative Care King's College London London United Kingdom Centre for Trauma Sciences Blizard Institute Queen Mary University of London London United Kingdom Royal London Hospital Barts Health NHS Trust London United Kingdom Department of Experiment Psychology University College London London United Kingdom Cambridge Liver Unit Addenbrooke's Hospital Cambridge University Hospitals Hills Road Box 210 Cambridge United Kingdom University of Cambridge United Kingdom Cambridge Consultants Ltd. United Kingdom Division of Anaesthesia Cambridge Centre for AI in Medicine University of Cambridge Cambridge United Kingdom Magdelene College University of Cambridge United Kingdom Institute of Health Informatics University College London London United Kingdom Department of Computing Imperial College London London United Kingdom SCRIPT Centre for IT and IP Law School of Law University of Edinburgh United Kingdom Center for Statistical Sciences School of Public Health Brown University Providence United States Research Group Artificial Intelligence HU University of Applied Sciences Utrecht Netherlands Jheronimus Academy of Data Science Tilburg University Eindhoven University of Technology s-Hertogenbosch Netherlands Centre for Theoretical Physics Queen Mary University of London London United Kingdom School of Computing Ulster University Belfast United Kingdom MRC Laboratory of Medical Sciences Imperial College London London United Kingdom Department of Informatics King's College London United Kingdom Physiotherapy Department Barts Health NHS Trust London United Kingdom Sport and Exercise Medicine Queen Mary University of London London United Kingdom School of Electronic Engineering and Computer Science Queen Mary University of London United Kingdom Department of Computing Imperial College London United Kingdom Departmen

Proposals of artificial intelligence (AI) solutions based on increasingly complex and accurate predictive models are becoming ubiquitous across many disciplines. As the complexity of these models grows, transparency and users' understanding often diminish. This suggests that accurate prediction alone is insufficient for making an AI-based solution truly useful. In the development of healthcare systems, this introduces new issues related to accountability and safety. Understanding how and why an AI system makes a recommendation may require complex explanations of its inner workings and reasoning processes. Although research on explainable AI (XAI) has significantly increased in recent years and there is high demand for XAI in medicine, defining what constitutes a good explanation remains ad hoc, and providing adequate explanations continues to be challenging. To fully realize the potential of AI, it is critical to address two fundamental questions about explanations for safety-critical AI applications, such as health-AI: (1) What is an explanation in health-AI? and (2) What are the attributes of a good explanation in health-AI? In this study, we examined published literature and gathered expert opinions through a two-round Delphi study. The research outputs include (1) a definition of what constitutes an explanation in health-AI and (2) a comprehensive list of attributes that characterize a good explanation in health-AI. © 2024, CC BY.

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Designing Ecosystems of Intelligence from First Principles

arXiv

引用

arXiv 2022年

作者： Friston, Karl J. Ramstead, Maxwell J.D. Kiefer, Alex B. Tschantz, Alexander Buckley, Christopher L. Albarracin, Mahault Pitliya, Riddhi J. Heins, Conor Klein, Brennan Millidge, Beren Sakthivadivel, Dalton A.R. Smithe, Toby St Clere Koudahl, Magnus Tremblay, Safae Essafi Petersen, Capm Fung, Kaiser Fox, Jason G. Swanson, Steven Mapes, Dan René, Gabriel VERSES AI Research Lab Los AngelesCA United States Wellcome Centre for Human Neuroimaging University College London London United Kingdom Department of Philosophy Monash University Melbourne Australia Sussex AI Group Department of Informatics University of Sussex Brighton United Kingdom Department of Computer Science Université du Québec à Montréal MontréalQC Canada Department of Experimental Psychology University of Oxford Oxford United Kingdom Department of Collective Behaviour Max Planck Institute of Animal Behavior Konstanz Germany Department of Biology University of Konstanz Konstanz Germany Centre for the Advanced Study of Collective Behaviour University of Konstanz Konstanz Germany Network Science Institute Northeastern University BostonMA United States Brain Network Dynamics Unit University of Oxford Oxford United Kingdom Department of Mathematics Stony Brook University Stony BrookNY United States Department of Physics and Astronomy Stony Brook University Stony BrookNY United States Department of Biomedical Engineering Stony Brook University Stony BrookNY United States Topos Institute BerkeleyCA United States Department of Electrical Engineering Eindhoven University of Technology Eindhoven Netherlands Department of Philosophy Université du Québec à Montréal MontréalQC Canada

This white paper lays out a vision of research and development in the field of artificial intelligence for the next decade (and beyond). Its denouement is a cyber-physical ecosystem of natural and synthetic sense-making, in which humans are integral participants—what we call "shared intelligence". This vision is premised on active inference, a formulation of adaptive behavior that can be read as a physics of intelligence, and which inherits from the physics of self-organization. In this context, we understand intelligence as the capacity to accumulate evidence for a generative model of one’s sensed world—also known as self-evidencing. Formally, this corresponds to maximizing (Bayesian) model evidence, via belief updating over several scales: i.e., inference, learning, and model selection. Operationally, this self-evidencing can be realized via (variational) message passing or belief propagation on a factor graph. Crucially, active inference foregrounds an existential imperative of intelligent systems;namely, curiosity or the resolution of uncertainty. This same imperative underwrites belief sharing in ensembles of agents, in which certain aspects (i.e., factors) of each agent’s generative world model provide a common ground or frame of reference. Active inference plays a foundational role in this ecology of belief sharing—leading to a formal account of collective intelligence that rests on shared narratives and goals. We also consider the kinds of communication protocols that must be developed to enable such an ecosystem of intelligences and motivate the development of a shared hyper-spatial modeling language and transaction protocol, as a first—and key—step towards such an ecology. © 2022, CC BY.

关键词： Ecosystems

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AMP0: Species-Specific Prediction of Antimicrobial Peptides using Zero and Few Shot Learning

arXiv

引用

arXiv 2019年

作者： Gull, Sadaf Minhas, Fayyaz PIEAS Biomedical Informatics Lab Pakistan Institute of Engineering and Applied Sciences PO Nilore Islamabad Pakistan Department of Computer Science University of Warwick Coventry United Kingdom

Motivation: The evolution of drug-resistant microbial species is one of the major challenges to global health. The development of new antimicrobial treatments such as antimicrobial peptides needs to be accelerated to combat this threat. However, the discovery of novel antimicrobial peptides is hampered by low-throughput biochemical assays. Computational techniques can be used for rapid screening of promising antimicrobial peptide candidates prior to testing in the wet lab. The vast majority of existing antimicrobial peptide predictors are non-targeted in nature, i.e., they can predict whether a given peptide sequence is antimicrobial, but they are unable to predict whether the sequence can target a particular microbial species. Results: In this work, we have developed a targeted antimicrobial peptide activity predictor that can predict whether a peptide is effective against a given microbial species or not. This has been made possible through zero-shot and few-shot machine learning. The proposed predictor called AMP0 takes in the peptide amino acid sequence and any N/C-termini modifications together with the genomic sequence of a target microbial species to generate targeted predictions. It is important to note that the proposed method can generate predictions for species that are not part of its training set. The accuracy of predictions for novel test species can be further improved by providing a few example peptides for that species. Our computational cross-validation results show that the proposed scheme is particularly effective for targeted antimicrobial prediction in comparison to existing approaches and can be used for screening potential antimicrobial peptides in a targeted manner especially for cases in which the number of training examples is small. Copyright © 2019, The Authors. All rights reserved.

关键词： Forecasting

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