检索结果-内蒙古大学图书馆

2019 Eurographics Workshop on visual Computing for Biology and Medicine, VCBM 2019

作者： Schatz, K. Krone, M. Bauer, T.L. Ferrario, V. Pleiss, J. Ertl, T. University of Stuttgart Stuttgart Germany Big Data Visual Analytics in Life Sciences Group University of Tübingen Tübingen Germany Institue of Biochemistry and Technical Biochemistry University of Stuttgart Stuttgart Germany

ISBN: (纸本)9783038680819

We present a novel abstract visualization for the binding sites of proteins. Binding sites play an essential role in enzymatic reactions and are, thus, often investigated in structural biology. They are typically located within cavities. The shape and properties of the cavity influence whether and how easily a substrate can reach the active site where the reaction is triggered. Molecular surface visualizations can help to analyze the accessibility of binding sites, but are typically prone to visual clutter. Our novel abstract visualization shows the cavity containing the binding site as well as the surface region directly surrounding the cavity entrance in a simplified manner. The resulting visualization resembles a hat, where the brim depicts the surrounding surface region and the crown the cavity. Hence, we dubbed our abstraction Molecular Sombrero, using the Spanish term for ‘hat’. Our abstraction is less cluttered than traditional molecular surface visualizations. It highlights important parameters, like cavity diameter, by mapping them to the shape of the sombrero. The visual abstraction also facilitates an easy side-by-side comparison of different data sets. We show the applicability of our Molecular Sombreros to different real-world use cases. © 2019 The Author(s) Eurographics Proceedings © 2019 The Eurographics Association.

关键词： Binding sites

来源：评论

学校读者我要写书评

暂无评论

A Web-based visual analytics Application for Biological Networks

A Web-based Visual Analytics Application for Biological Netw...

引用

22nd Eurographics / IEEE VGTC Conference on visualization, EuroVis 2020

作者： Krone, M. Dräger, A. Cobanoglu, E. Harke, M.O. Hoene, M. Weigert, C. Lehmann, R. Big Data Visual Analytics in Life Sciences Department of Computer Science University of Tübingen Germany University of Tübingen Germany Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens Department of Computer Science University of Tübingen Germany Partner Site Tübingen Germany Institute for Clinical Chemistry and Pathobiochemistry University of Tübingen Germany Institute for Diabetes Research and Metabolic Diseases The Helmholtz Zentrum München The University of Tübingen Germany Oberschleissheim Germany

ISBN: (纸本)9783038681052

Modern high-throughput methods enable rapidly obtaining transcriptomics data, which includes information about the expression rate of genes. The expression rates are usually given as fold change, which describes the over- or under-expression of each gene. Each gene can be part of one or more biological pathways. A pathway models the interactions between molecules in an organism that lead to a particular chemical change. Consequently, many applications in medical research need to analyze the impact of gene expression changes on the biological pathways of an organism. It allows concluding diseases or other conditions of the organism. We present a web-based visual analytics application that facilitates exploring the network of biological pathways corresponding to a given set of genes. The network is constructed from pathways derived from an external database. Users can interactively zoom and filter the network and get details on demand. Our application is currently work in progress and is developed in close collaboration with medical researchers. In subsequent steps, we strive to add more features, such as the ability to compare data from different individuals or to visualize time series data. Furthermore, we want to extend our application to visualize not just transcriptomics but multi-omics data. © 2020 The Author(s) Eurographics Proceedings © 2020 The Eurographics Association.

关键词： Gene expression

来源：评论

学校读者我要写书评

暂无评论

The Western and Chinese exercise training for blood pressure reduction among hypertensive patients: An overview of systematic reviews

引用

Journal of clinical hypertension (Greenwich, Conn.) 2024年第12期26卷 1327-1341页

作者： Kelvin Tsoi Amy Lam Joshua Tran Ziyu Hao Karen Yiu Yook-Chin Chia Yuda Turana Saulat Siddique Yuqing Zhang Hao-Min Cheng Ji-Guang Wang Kazuomi Kario The Jockey Club School of Public Health and Primary Care Faculty of Medicine The Chinese University of Hong Kong Hong Kong Hong Kong. Stanley Ho Big Data Decision Analytics Research Centre The Chinese University of Hong Kong Hong Kong Hong Kong. Department of Medicine and Therapeutics Faculty of Medicine The Chinese University of Hong Kong Hong Kong Hong Kong. Department of Medical Sciences School of Medical and Life Sciences Sunway University Bandar Sunway Malaysia. Department of Primary Care Medicine Faculty of Medicine University of Malaya Kuala Lumpur Malaysia. Department of Neurology School of Medicine and Health Sciences Atma Jaya Catholic University of Indonesia Jakarta Indonesia. Punjab Medical Center Lahore Pakistan. Divisions of Hypertension and Heart Failure Fu Wai Hospital Chinese Academy of Medical Sciences and Peking Union Medical College Beijing China. Center for Evidence-based Medicine Taipei Veterans General Hospital Taipei Taiwan. Ph.D. Program of Interdisciplinary Medicine (PIM) National Yang Ming Chiao Tung University College of Medicine Taipei Taiwan. Institute of Public Health National Yang Ming Chiao Tung University College of Medicine Taipei Taiwan. Institute of Health and Welfare Policy National Yang Ming Chiao Tung University College of Medicine Taipei Taiwan. Department of Cardiovascular Medicine the Shanghai Institute of Hypertension Shanghai Key Laboratory of Hypertension State Key Laboratory of Medical Genomics National Research Centre for Translational Medicine Ruijin Hospital Shanghai Jiaotong University School of Medicine Shanghai China. Division of Cardiovascular Medicine Department of Medicine Jichi Medical University School of Medicine Tochigi Japan.

Hypertension remains the world's leading cause of premature death. Interventions such as exercise, diet modification, and pharmacological therapy remain the mainstay of hypertension treatment. Numerous systematic reviews and meta-analyses demonstrated the effectiveness of western exercises, such as aerobic exercise and resistance exercise, in reducing blood pressure in hypertensive patients. There is recently emerging evidence of blood pressure reduction with Chinese exercises, such as Tai Chi, Baduanjin, and Qigong. The current overview of systematic reviews aims to evaluate the quality and descriptively summarize the evidence for the effectiveness of western and Chinese exercises for hypertension management. Thirty-nine systematic reviews were included in this overview, with 15 of those being on Chinese exercise. Evidence suggests that exercise training, regardless of Western or Chinese exercise, generally reduced both systolic and diastolic blood pressure. High-intensity intermittent training did not further reduce blood pressure when compared to moderate-intensity continuous training. Conflicting results on the effectiveness of blood pressure reduction when comparing Chinese and Western exercise training were observed. This suggests the comparable effectiveness of Chinese exercise training, in particularly Tai Chi, to general or aerobic exercise training in terms of blood pressure reduction. The Chinese exercise modality and intensity may be more suitable for the middle-aged and elderly population.

关键词： Antihypertensive Therapy Exercise/Hypertension lifestyle Modification/Hypertension Non‐Pharmacological Therapy Western and Chinese exercise

来源：评论

学校读者我要写书评

暂无评论

A two-stage deep learning-based hybrid model for daily wind speed forecasting

引用

Heliyon 2025年第1期11卷 e41026页

作者： Band, Shahab S. Ameri, Rasoul Qasem, Sultan Noman Mehdizadeh, Saeid Gupta, Brij B. Pai, Hao-Ting Shahmirzadi, Danyal Salwana, Ely Mosavi, Amir Future Technology Research Center National Yunlin University of Science and Technology Douliu Taiwan Department of Information Management International Graduate School of Artificial Intelligence National Yunlin University of Science and Technology Douliu Taiwan Computer Science Department College of Computer and Information Sciences Imam Mohammad Ibn Saud Islamic University (IMSIU) Riyadh 11432 Saudi Arabia Computer Science Department Faculty of Applied Science Taiz University Taiz 6803 Yemen Water Engineering Department Urmia University Urmia Iran Department of Computer Science and Information Engineering Asia University Taichung 413 Taiwan Symbiosis Centre for Information Technology (SCIT) Symbiosis International University Pune India Center for Interdisciplinary Research University of Petroleum and Energy Studies (UPES) Dehradun India Department of Big Data Business Analytics National Pingtung University Pingtung Taiwan of Engineering Science and Technology National Yunlin University of Science and Technology 123 University Road Yunlin Douliou 64002 Taiwan Institute of Visual Informatics Universiti Kebangsaan Malaysia Selangor Bangi 43600 Malaysia John von Neumann Faculty of Informatics Obuda University Budapest Hungary Ludovika University of Public Service Budapest Hungary

Global adoption of wind energy continues to increase, while improving the efficiency of turbine settings requires reliable wind speed (WS) models. The latest models rely on artificial intelligence (AI) optimizations which constructs tests on a range of novel hybrid models to examine the reliability. Gradient Boosting (GB), Random Forest (RF), and Long Short-Term Memory (LSTM) are used in new combinations for data pre-processing. A Time Varying Filter-based Empirical Mode Decomposition (TVFEMD) model is coupled with the GB and LSTM standalone models, to create TVFEMD-GB and TVFEMD-LSTM hybrids, which are run in competition with each other. Eventually, a preferred hybrid form is established, simultaneous hybridization of TVFEMD with GB and LSTM. This study is the first to hybridize these fundamental systems, and create a TVFEMD-GB-LSTM model that can forecast WS. This study finds that the novel hybrid models exhibit superior performance to standalone GB and LSTM models, opening the pathway to alternative WS prediction techniques. © 2024 The Authors

关键词： Artificial intelligence big data data science Forecasting Gradient boosting Long short-term memory Machine learning Wind speed

来源：评论

学校读者我要写书评

暂无评论

Surveillance of Multidrug-Resistant Bacterial Infections in Non-Adult Patients-Zhejiang Province,China,2014-2019

引用

China CDC weekly 2021年第47期3卷 1005-1013,I0004页

作者： Yuchen Wu Shi Chen Jiaping Li Chang Cai Hanyu Wang Mingming Zhou Junmin Cao Qiang Wang Shenghai Wu Shibiao Ding Xiaofei Zhao Long Sun Qingfeng Hu Hongwei Zhou Xiang Qian Qing Yang Sheng Chen Rong Zhang Department of Clinical Laboratory the Second Affiliated Hospital of Zhejiang UniversityZhejiang UniversityHangzhouZhejiangChina Clinical Microbiology Laboratory the Third People’s Hospital of HangzhouHangzhouZhejiangChina China Australia Joint Laboratory for Animal Health Big Data Analytics College of Animal Science and TechnologyZhejiang Agricultural and Forestry UniversityHangzhouZhejiangChina Master of Science New Jersey Institute of TechnologyNewarkNew Jerseythe United States of America National Clinical Research Center for Child Health the Children’s HospitalZhejiang University School of MedicineHangzhouZhejiangChina Department of Hospital Infection Control Zhejiang Provincial Hospital of Traditional Chinese MedicineHangzhouZhejiangChina Department of Clinical Laboratory the Second Affiliated Hospital of Zhejiang Chinese Medical UniversityHangzhouZhejiangChina Department of Laboratory Medicine the First Affiliated People’s Hospital of HangzhouZhejiang University School of MedicineHangzhouZhejiangChina Hangzhou Red Cross Hospital HangzhouZhejiangChina Department of Clinical Laboratory the Affiliated Hospital of Hangzhou Normal UniversityHangzhouZhejiangChina Department of Clinical Laboratory Hangzhou Women’s HospitalHangzhou Maternity and Child Health Care HospitalHangzhouZhejiangChina Clinical Diagnostic Laboratory People’s Hospital of ZhejiangHangzhouZhejiangChina Department of Clinical Laboratory Hangzhou Hospital of Traditional Chinese MedicineHangzhouZhejiangChina The First Affiliated Hospital of Zhejiang University Zhejiang UniversityHangzhouZhejiangChina Department of Infectious Diseases and Public Health Jockey Club College of Veterinary Medicine and Life SciencesCity University of Hong KongHong Kong Special Administrative RegionChina

ABSTRACT Introduction:Antimicrobial resistance has become a major public health threat *** prevalence of multidrug-resistant(MDR)bacterial infections increased substantially among inpatients under 18 years of age in recent *** Zhejiang Province,China,the trends of drug-resistance in non-adult patients from 2014 to 2019 were monitored,aiming to determine the variation patterns and epidemiological features of MDR strains.

关键词： globally threat Zhejiang

来源：评论

学校读者我要写书评

暂无评论

Cancer Therapy-Related Cardiac Dysfunction in Patients Using Immune Checkpoint Inhibitors: A Multicenter Study

JACC. Asia

引用

JACC. Asia 2025年第7期5卷 942-945页

作者： Chieh-Yu Chang Chun-Chi Chen Wen-Kuan Huang Ming-Jer Hsieh Ming-Lung Tsai Cheng-Hung Lee Tien-Hsing Chen Shao-Wei Chen Kuo-Chun Hung Wen-Cheng Chang Pao-Hsien Chu I-Chang Hsieh Ming-Shien Wen Yu-Ching Wang Dong-Yi Chen Division of Cardiology Department of Internal Medicine Chang Gung Memorial Hospital at Linkou Chang Gung University College of Medicine Taoyuan Taiwan. Division of Cardiology Department of Internal Medicine Chang Gung Memorial Hospital at Linkou National Tsing Hua University College of Life Sciences and Medicine Hsinchu Taiwan. Division of Hematology/Oncology Department of Internal Medicine Chang Gung Memorial Hospital at Linkou Taoyuan Taiwan. Division of Cardiology New Taipei Municipal TuCheng Hospital Chang Gung University College of Medicine Taoyuan Taiwan. Division of Cardiology Department of Internal Medicine Chang Gung Memorial Hospital at Keelung Chang Gung University College of Medicine Taoyuan Taiwan. Department of Thoracic and Cardiovascular Surgery Chang Gung Memorial Hospital at Linkou Chang Gung University College of Medicine Taoyuan Taiwan Center for Big Data Analytics and Statistics Department of Medical Research and Development Chang Gung Memorial Hospital at Linkou Taoyuan Taiwan. Division of Cardiology Department of Internal Medicine Chang Gung Memorial Hospital at Linkou Chang Gung University College of Medicine Taoyuan Taiwan. Electronic address: dongyi70@***.

来源：评论

学校读者我要写书评

暂无评论

Why is the Winner the Best?

Why is the Winner the Best?

引用

Conference on Computer Vision and Pattern Recognition (CVPR)

作者： M. Eisenmann A. Reinke V. Weru M. D. Tizabi F. Isensee T. J. Adler S. Ali V. Andrearczyk M. Aubreville U. Baid S. Bakas N. Balu S. Bano J. Bernal S. Bodenstedt A. Casella V. Cheplygina M. Daum M. De Bruijne A. Depeursinge R. Dorent J. Egger D. G. Ellis S. Engelhardt M. Ganz N. Ghatwary G. Girard P. Godau A. Gupta L. Hansen K. Harada M. Heinrich N. Heller A. Hering A. Huaulmé P. Jannin A. E. Kavur O. Kodym M. Kozubek J. Li H. Li J. Ma C. Martín-Isla B. Menze A. Noble V. Oreiller N. Padoy S. Pati K. Payette T. Rädsch J. Rafael-Patiño V. Singh Bawa S. Speidel C. H. Sudre K. Van Wijnen M. Wagner D. Wei A. Yamlahi M. H. Yap C. Yuan M. Zenk A. Zia D. Zimmerer D. Aydogan B. Bhattarai L. Bloch R. Brüngel J. Cho C. Choi Q. Dou I. Ezhov C. M. Friedrich C. Fuller R. R. Gaire A. Galdran Á. García Faura M. Grammatikopoulou S. Hong M. Jahanifar I. Jang A. Kadkhodamohammadi I. Kang F. Kofler S. Kondo H. Kuijf M. Li M. Luu T. Martinčič P. Morais M. A. Naser B. Oliveira D. Owen S. Pang J. Park S. Park S. Płotka E. Puybareau N. Rajpoot K. Ryu N. Saeed A. Shephard P. Shi D. Štepec R. Subedi G. Tochon H. R. Torres H. Urien J. L. Vilaça K. A. Wahid H. Wang J. Wang L. Wang X. Wang B. Wiestler M. Wodzinski F. Xia J. Xie Z. Xiong S. Yang Y. Yang Z. Zhao K. Maier-Hein P. F. Jäger A. Kopp-Schneider L. Maier-Hein Division of Intelligent Medical Systems German Cancer Research Center (DKFZ) Heidelberg Germany Helmholtz Imaging German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Division of Biostatistics German Cancer Research Center (DKFZ) Heidelberg Germany Division of Medical Image Computing German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Engineering and Physical Sciences School of Computing University of Leeds Leeds UK Institute of Informatics School of Management HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland Sierre Switzerland Department of Nuclear Medicine and Molecular Imaging Lausanne University Hospital Lausanne Switzerland Technische Hochschule Ingolstadt Ingolstadt Germany Center for Artificial Intelligence and Data Science for Integrated Diagnostics (AI2D) and Center for Biomedical Image Computing and Analytics (CBICA) University of Pennsylvania Philadelphia PA USA Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Department of Radiology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Department of Radiology University of Washington Seattle WA USA Department of Computer Science Wellcome/EPSRC Centre for Interventional and Surgical Sciences (WEISS) University College London London UK Universitat Autònoma de Barcelona & Computer Vision Center Barcelona Spain Division of Translational Surgical Oncology National Center for Tumor Diseases (NCT/UCC) Dresden Dresden Germany Department of Advanced Robotics Istituto Italiano di Tecnologia Italy Department of Electronics Information and Bioengineering Politecnico di Milano Milan Italy IT University of Copenhagen Copenhagen Denmark Department of General Visceral and Transplantation Surgery Heidelberg University Hospital Heidelberg Germany Department of Radiology and Nuc

International benchmarking competitions have become fundamental for the comparative performance assessment of image analysis methods. However, little attention has been given to investigating what can be learnt from these competitions. Do they really generate scientific progress? What are common and successful participation strategies? What makes a solution superior to a competing method? To address this gap in the literature, we performed a multicenter study with all 80 competitions that were conducted in the scope of IEEE ISBI 2021 and MICCAI 2021. Statistical analyses performed based on comprehensive descriptions of the submitted algorithms linked to their rank as well as the underlying participation strategies revealed common characteristics of winning solutions. These typically include the use of multi-task learning (63%) and/or multi-stage pipelines (61%), and a focus on augmentation (100%), image preprocessing (97%), data curation (79%), and post-processing (66%). The “typical” lead of a winning team is a computer scientist with a doctoral degree, five years of experience in biomedical image analysis, and four years of experience in deep learning. Two core general development strategies stood out for highly-ranked teams: the reflection of the metrics in the method design and the focus on analyzing and handling failure cases. According to the organizers, 43% of the winning algorithms exceeded the state of the art but only 11% completely solved the respective domain problem. The insights of our study could help researchers (1) improve algorithm development strategies when approaching new problems, and (2) focus on open research questions revealed by this work.

关键词：

来源：评论

学校读者我要写书评

暂无评论

The Past, Present, and Future of the Brain Imaging data Structure (BIDS)

arXiv

引用

arXiv 2023年

作者： Poldrack, Russell A. Markiewicz, Christopher J. Appelhoff, Stefan Ashar, Yoni K. Auer, Tibor Baillet, Sylvain Bansal, Shashank Beltrachini, Leandro Bénar, Christian G. Bertazzoli, Giacomo Bhogawar, Suyash Blair, Ross W. Bortoletto, Marta Boudreau, Mathieu Brooks, Teon L. Calhoun, Vince D. Castelli, Filippo Maria Clement, Patricia Cohen, Alexander L. Cohen-Adad, Julien D'Ambrosio, Sasha de Hollander, Gilles de la Iglesia-Vayá, María de la Vega, Alejandro Delorme, Arnaud Devinsky, Orrin Draschkow, Dejan Duff, Eugene Paul DuPre, Elizabeth Earl, Eric Esteban, Oscar Feingold, Franklin W. Flandin, Guillaume Galassi, Anthony Gallitto, Giuseppe Ganz, Melanie Gau, Rémi Gholam, James Ghosh, Satrajit S. Giacomel, Alessio Gillman, Ashley G. Gleeson, Padraig Gramfort, Alexandre Guay, Samuel Guidali, Giacomo Halchenko, Yaroslav O. Handwerker, Daniel A. Hardcastle, Nell Herholz, Peer Hermes, Dora Honey, Christopher J. Innis, Robert B. Ioanas, Horea-Ioan Jahn, Andrew Karakuzu, Agah Keator, David B. Kiar, Gregory Kincses, Balint Laird, Angela R. Lau, Jonathan C. Lazari, Alberto Legarreta, Jon Haitz Li, Adam Li, Xiangrui Love, Bradley C. Lu, Hanzhang Maumet, Camille Mazzamuto, Giacomo Meisler, Steven L. Mikkelsen, Mark Mutsaerts, Henk Nichols, Thomas E. Nikolaidis, Aki Nilsonne, Gustav Niso, Guiomar Norgaard, Martin Okell, Thomas W. Oostenveld, Robert Ort, Eduard Park, Patrick J. Pawlik, Mateusz Pernet, Cyril R. Pestilli, Franco Petr, Jan Phillips, Christophe Poline, Jean-Baptiste Pollonini, Luca Raamana, Pradeep Reddy Ritter, Petra Rizzo, Gaia Robbins, Kay A. Rockhill, Alexander P. Rogers, Christine Rokem, Ariel Rorden, Chris Routier, Alexandre Saborit-Torres, Jose Manuel Salo, Taylor Schirner, Michael Smith, Robert E. Spisak, Tamas Sprenger, Julia Swann, Nicole C. Szinte, Martin Takerkart, Sylvain Thirion, Bertrand Thomas, Adam G. Torabian, Sajjad Varoquaux, Gael Voytek, Bradley Welzel, Julius Wilson, Martin Yarkoni, Tal Gorgolewski, Krzysztof J. Department of Psychology Stanford University StanfordCA United States Max Planck Institute for Human Development Berlin Germany University of Colorado Anschutz Medical Campus AuroraCO United States School of Psychology University of Surrey Guildford United Kingdom McConnell Brain Imaging Centre Montréal Neurological Institute McGill University Montréal Canada Department of Bioengineering University of California San Diego La Jolla CA United States School of Physics Astronomy Cardiff University Wales United Kingdom Institut de Neurosciences des Systèmes Marseille France Neurophysiology Lab IRCCS Istituto Centro San Giovanni di Dio Fatebenefratelli Brescia Italy Center for Mind/Brain Sciences - CIMeC University of Trento TN Rovereto Italy Brigham and Women’s Hospital BostonMA United States Massachusetts General Hospital BostonMA United States Harvard Medical School BostonMA United States Rackspace Technology San AntonioTX United States NeuroPoly Lab Polytechnique Montréal MontréalQC Canada Georgia State Georgia Tech Emory AtlantaGA United States University of Florence Sesto Fiorentino Italy Bioretics srl Cesena Italy Department of Medical Imaging Ghent University Hospital Ghent Belgium Department of Diagnostic Sciences Ghent University Ghent Belgium Department of Neurology Boston Children's Hospital BostonMA United States Dipartimento di Scienze della Salute dell'Università degli Studi di Milano Milan Italy Department of Clinical and Experimental Epilepsy University College London United Kingdom Zurich Center for Neuroeconomics Department of Economics University of Zurich Zurich Switzerland UMIB-FISABIO Valencia Spain The University of Texas at Austin AustinTX United States SCCN University of California San Diego La Jolla CA United States Department of Neurology NYU Langone Medical Center New YorkNY United States Department of Experimental Psychology University of Oxford Oxford United Kingdom UK Dementia Research Ins

The Brain Imaging data Structure (BIDS) is a community-driven standard for the organization of data and metadata from a growing range of neuroscience modalities. This paper is meant as a history of how the standard has developed and grown over time. We outline the principles behind the project, the mechanisms by which it has been extended, and some of the challenges being addressed as it evolves. We also discuss the lessons learned through the project, with the aim of enabling researchers in other domains to learn from the success of BIDS. © 2023, CC BY.

关键词： data structures

来源：评论

学校读者我要写书评

暂无评论

Genetic drivers of heterogeneity in type 2 diabetes pathophysiology

引用

Nature 2024年第8003期627卷 347-357页

作者： Ken Suzuki Konstantinos Hatzikotoulas Lorraine Southam Henry J Taylor Xianyong Yin Kim M Lorenz Ravi Mandla Alicia Huerta-Chagoya Giorgio E M Melloni Stavroula Kanoni Nigel W Rayner Ozvan Bocher Ana Luiza Arruda Kyuto Sonehara Shinichi Namba Simon S K Lee Michael H Preuss Lauren E Petty Philip Schroeder Brett Vanderwerff Mart Kals Fiona Bragg Kuang Lin Xiuqing Guo Weihua Zhang Jie Yao Young Jin Kim Mariaelisa Graff Fumihiko Takeuchi Jana Nano Amel Lamri Masahiro Nakatochi Sanghoon Moon Robert A Scott James P Cook Jung-Jin Lee Ian Pan Daniel Taliun Esteban J Parra Jin-Fang Chai Lawrence F Bielak Yasuharu Tabara Yang Hai Gudmar Thorleifsson Niels Grarup Tamar Sofer Matthias Wuttke Chloé Sarnowski Christian Gieger Darryl Nousome Stella Trompet Soo-Heon Kwak Jirong Long Meng Sun Lin Tong Wei-Min Chen Suraj S Nongmaithem Raymond Noordam Victor J Y Lim Claudia H T Tam Yoonjung Yoonie Joo Chien-Hsiun Chen Laura M Raffield Bram Peter Prins Aude Nicolas Lisa R Yanek Guanjie Chen Jennifer A Brody Edmond Kabagambe Ping An Anny H Xiang Hyeok Sun Choi Brian E Cade Jingyi Tan K Alaine Broadaway Alice Williamson Zoha Kamali Jinrui Cui Manonanthini Thangam Linda S Adair Adebowale Adeyemo Carlos A Aguilar-Salinas Tarunveer S Ahluwalia Sonia S Anand Alain Bertoni Jette Bork-Jensen Ivan Brandslund Thomas A Buchanan Charles F Burant Adam S Butterworth Mickaël Canouil Juliana C N Chan Li-Ching Chang Miao-Li Chee Ji Chen Shyh-Huei Chen Yuan-Tsong Chen Zhengming Chen Lee-Ming Chuang Mary Cushman John Danesh Swapan K Das H Janaka de Silva George Dedoussis Latchezar Dimitrov Ayo P Doumatey Shufa Du Qing Duan Kai-Uwe Eckardt Leslie S Emery Daniel S Evans Michele K Evans Krista Fischer James S Floyd Ian Ford Oscar H Franco Timothy M Frayling Barry I Freedman Pauline Genter Hertzel C Gerstein Vilmantas Giedraitis Clicerio González-Villalpando Maria Elena González-Villalpando Penny Gordon-Larsen Myron Gross Lindsay A Guare Sophie Hackinger Liisa Hakaste Sohee Han Andrew T Hattersley Christian Herder Momoko Horikoshi Annie-Green Howard Willa Centre for Genetics and Genomics Versus Arthritis Centre for Musculoskeletal Research Division of Musculoskeletal and Dermatological Sciences University of Manchester Manchester UK. Department of Diabetes and Metabolic Diseases Graduate School of Medicine University of Tokyo Tokyo Japan. Department of Statistical Genetics Osaka University Graduate School of Medicine Suita Japan. Institute of Translational Genomics Helmholtz Zentrum München German Research Center for Environmental Health Neuherberg Germany. konstantinos.hatzikotoulas@helmholtz-munich.de. Institute of Translational Genomics Helmholtz Zentrum München German Research Center for Environmental Health Neuherberg Germany. Center for Precision Health Research National Human Genome Research Institute National Institutes of Health Bethesda MD USA. British Heart Foundation Cardiovascular Epidemiology Unit Department of Public Health and Primary Care University of Cambridge Cambridge UK. Heart and Lung Research Institute University of Cambridge Cambridge UK. Department of Epidemiology School of Public Health Nanjing Medical University Nanjing China. Department of Biostatistics and Center for Statistical Genetics University of Michigan Ann Arbor MI USA. Corporal Michael J. Crescenz VA Medical Center Philadelphia PA USA. Department of Systems Pharmacology and Translational Therapeutics University of Pennsylvania Perelman School of Medicine Philadelphia PA USA. Department of Genetics University of Pennsylvania Perelman School of Medicine Philadelphia PA USA. Programs in Metabolism and Medical and Population Genetics Broad Institute of Harvard and MIT Cambridge MA USA. Diabetes Unit and Center for Genomic Medicine Massachusetts General Hospital Boston MA USA. TIMI Study Group Division of Cardiovascular Medicine Brigham and Women's Hospital Harvard Medical School Boston MA USA. William Harvey Research Institute Barts and the London School of Medicine and Dentistry Queen Mary University of London L

Type 2 diabetes (T2D) is a heterogeneous disease that develops through diverse pathophysiological processes and molecular mechanisms that are often specific to cell type. Here, to characterize the genetic contribution to these processes across ancestry groups, we aggregate genome-wide association study data from 2,535,601 individuals (39.7% not of European ancestry), including 428,452 cases of T2D. We identify 1,289 independent association signals at genome-wide significance (P < 5 × 10) that map to 611 loci, of which 145 loci are, to our knowledge, previously unreported. We define eight non-overlapping clusters of T2D signals that are characterized by distinct profiles of cardiometabolic trait associations. These clusters are differentially enriched for cell-type-specific regions of open chromatin, including pancreatic islets, adipocytes, endothelial cells and enteroendocrine cells. We build cluster-specific partitioned polygenic scores in a further 279,552 individuals of diverse ancestry, including 30,288 cases of T2D, and test their association with T2D-related vascular outcomes. Cluster-specific partitioned polygenic scores are associated with coronary artery disease, peripheral artery disease and end-stage diabetic nephropathy across ancestry groups, highlighting the importance of obesity-related processes in the development of vascular outcomes. Our findings show the value of integrating multi-ancestry genome-wide association study data with single-cell epigenomics to disentangle the aetiological heterogeneity that drives the development and progression of T2D. This might offer a route to optimize global access to genetically informed diabetes care.

关键词：

来源：评论

学校读者我要写书评

暂无评论

Biomedical image analysis competitions: The state of current participation practice

arXiv

引用

arXiv 2022年

作者： Eisenmann, Matthias Reinke, Annika Weru, Vivienn Tizabi, Minu Dietlinde Isensee, Fabian Adler, Tim J. Godau, Patrick Cheplygina, Veronika Kozubek, Michal Maier-Hein, Klaus Jäger, Paul F. Kopp-Schneider, Annette Maier-Hein, Lena Ali, Sharib Gupta, Anubha Kybic, Jan Noble, Alison de Solórzano, Carlos Ortiz Pachade, Samiksha Petitjean, Caroline Sage, Daniel Wei, Donglai Wilden, Elizabeth Alapatt, Deepak Andrearczyk, Vincent Baid, Ujjwal Bakas, Spyridon Balu, Niranjan Bano, Sophia Bawa, Vivek Singh Bernal, Jorge Bodenstedt, Sebastian Casella, Alessandro Choi, Jinwook Commowick, Olivier Daum, Marie Depeursinge, Adrien Dorent, Reuben Egger, Jan Eichhorn, Hannah Engelhardt, Sandy Ganz, Melanie Girard, Gabriel Hansen, Lasse Heinrich, Mattias Heller, Nicholas Hering, Alessa Huaulmé, Arnaud Kim, Hyunjeong Li, Hongwei Bran Landman, Bennett Li, Jianning Ma, Jun Martel, Anne Martín-Isla, Carlos Menze, Bjoern Nwoye, Chinedu Innocent Oreiller, Valentin Padoy, Nicolas Pati, Sarthak Payette, Kelly Sudre, Carole van Wijnen, Kimberlin Vardazaryan, Armine Vercauteren, Tom Wagner, Martin Wang, Chuanbo Yap, Moi Hoon Yu, Zeyun Yuan, Chun Zenk, Maximilian Zia, Aneeq Zimmerer, David Bao, Rina Choi, Chanyeol Cohen, Andrew Dzyubachyk, Oleh Galdran, Adrian Gan, Tianyuan Guo, Tianqi Gupta, Pradyumna Haithami, Mahmood Ho, Edward Jang, Ikbeom Li, Zhili Luo, Zhengbo Lux, Filip Makrogiannis, Sokratis Müller, Dominik Oh, Young-Tack Pang, Subeen Pape, Constantin Polat, Gorkem Reed, Charlotte Rosalie Ryu, Kanghyun Scherr, Tim Thambawita, Vajira Wang, Haoyu Wang, Xinliang Xu, Kele Yeh, Hung Yeo, Doyeob Yuan, Yixuan Zeng, Yan Zhao, Xin Abbing, Julian Adam, Jannes Adluru, Nagesh Agethen, Niklas Ahmed, Salman Al Khalil, Yasmina Alenyà, Mireia Alhoniemi, Esa An, Chengyang Arega, Tewodros Weldebirhan Avisdris, Netanell Aydogan, Dogu Baran Bai, Yingbin Calisto, Maria Baldeon Basaran, Berke Doga Beetz, Marcel Bian, Hao Blansit, Kevin Bloch, Louise Bohnsack, Robert Bosticardo, Sara Breen, Jack Brudfors, Mikael Brüngel, Raphael Cabezas, Mariano Cacciola, Alb Heidelberg Division of Intelligent Medical Systems Germany Heidelberg HI Helmholtz Imaging Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Heidelberg Division of Biostatistics Germany Heidelberg Division of Medical Image Computing Germany Heidelberg HI Applied Vision Lab Germany IT University of Copenhagen Copenhagen Denmark Centre for Biomedical Image Analysis Masaryk University Brno Czech Republic Heidelberg Interactive Machine Learning Group Germany Faculty of Mathematics and Computer Science and Medical Faculty Heidelberg University Heidelberg Germany NCT Heidelberg DKFZ University Hospital Heidelberg Germany School of Computing University of Leeds Leeds United Kingdom SBILab Department of ECE IIIT-Delhi India Faculty of Electrical Engineering Czech Technical University Prague Czech Republic Institute of Biomedical Engineering University of Oxford United Kingdom Center for Applied Medical Research Pamplona Spain Shri Guru Gobind Singhji Institute of Engineering and Technology Maharashtra Nanded India Université de Rouen Normandie France Lausanne Switzerland School of Engineering and Applied Science Harvard University United States ICube University of Strasbourg CNRS France Institute of Informatics School of Management HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland Techno-Pôle 3 Sierre3960 Switzerland Department of Nuclear Medicine and Molecular Imaging Lausanne University Hospital Rue du Bugnon 46 LausanneCH-1011 Switzerland University of Pennsylvania PhiladelphiaPA United States Department of Radiology University of Washington United States Wellcome EPSRC Centre for Interventional and Surgical Sciences University College London London United Kingdom Visual Artificial Intelligence Lab Oxford Brookes University Oxford United Kingdom Universitat Autònoma de Barcelona & Computer Vision Center Spain Dresden Fetscherstraße 74 PF 64 Dresden01307 Germany

The number of international benchmarking competitions is steadily increasing in various fields of machine learning (ML) research and practice. So far, however, little is known about the common practice as well as bottlenecks faced by the community in tackling the research questions posed. To shed light on the status quo of algorithm development in the specific field of biomedical imaging analysis, we designed an international survey that was issued to all participants of challenges conducted in conjunction with the IEEE ISBI 2021 and MICCAI 2021 conferences (80 competitions in total). The survey covered participants' expertise and working environments, their chosen strategies, as well as algorithm characteristics. A median of 72% challenge participants took part in the survey. According to our results, knowledge exchange was the primary incentive (70%) for participation, while the reception of prize money played only a minor role (16%). While a median of 80 working hours was spent on method development, a large portion of participants stated that they did not have enough time for method development (32%). 25% perceived the infrastructure to be a bottleneck. Overall, 94% of all solutions were deep learning-based. Of these, 84% were based on standard architectures. 43% of the respondents reported that the data samples (e.g., images) were too large to be processed at once. This was most commonly addressed by patch-based training (69%), downsampling (37%), and solving 3D analysis tasks as a series of 2D tasks. K-fold cross-validation on the training set was performed by only 37% of the participants and only 50% of the participants performed ensembling based on multiple identical models (61%) or heterogeneous models (39%). 48% of the respondents applied postprocessing steps. © 2022, CC BY.

关键词： Benchmarking

来源：评论

学校读者我要写书评

暂无评论

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案：

请选择收藏分类：

通借通还

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：