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Author Correction: Federated learning enables big data for rare cancer boundary detection

Nature communications 2023年第1期14卷 436页

作者： Sarthak Pati Ujjwal Baid Brandon Edwards Micah Sheller Shih-Han Wang G Anthony Reina Patrick Foley Alexey Gruzdev Deepthi Karkada Christos Davatzikos Chiharu Sako Satyam Ghodasara Michel Bilello Suyash Mohan Philipp Vollmuth Gianluca Brugnara Chandrakanth J Preetha Felix Sahm Klaus Maier-Hein Maximilian Zenk Martin Bendszus Wolfgang Wick Evan Calabrese Jeffrey Rudie Javier Villanueva-Meyer Soonmee Cha Madhura Ingalhalikar Manali Jadhav Umang Pandey Jitender Saini John Garrett Matthew Larson Robert Jeraj Stuart Currie Russell Frood Kavi Fatania Raymond Y Huang Ken Chang Carmen Balaña Jaume Capellades Josep Puig Johannes Trenkler Josef Pichler Georg Necker Andreas Haunschmidt Stephan Meckel Gaurav Shukla Spencer Liem Gregory S Alexander Joseph Lombardo Joshua D Palmer Adam E Flanders Adam P Dicker Haris I Sair Craig K Jones Archana Venkataraman Meirui Jiang Tiffany Y So Cheng Chen Pheng Ann Heng Qi Dou Michal Kozubek Filip Lux Jan Michálek Petr Matula Miloš Keřkovský Tereza Kopřivová Marek Dostál Václav Vybíhal Michael A Vogelbaum J Ross Mitchell Joaquim Farinhas Joseph A Maldjian Chandan Ganesh Bangalore Yogananda Marco C Pinho Divya Reddy James Holcomb Benjamin C Wagner Benjamin M Ellingson Timothy F Cloughesy Catalina Raymond Talia Oughourlian Akifumi Hagiwara Chencai Wang Minh-Son To Sargam Bhardwaj Chee Chong Marc Agzarian Alexandre Xavier Falcão Samuel B Martins Bernardo C A Teixeira Flávia Sprenger David Menotti Diego R Lucio Pamela LaMontagne Daniel Marcus Benedikt Wiestler Florian Kofler Ivan Ezhov Marie Metz Rajan Jain Matthew Lee Yvonne W Lui Richard McKinley Johannes Slotboom Piotr Radojewski Raphael Meier Roland Wiest Derrick Murcia Eric Fu Rourke Haas John Thompson David Ryan Ormond Chaitra Badve Andrew E Sloan Vachan Vadmal Kristin Waite Rivka R Colen Linmin Pei Murat Ak Ashok Srinivasan J Rajiv Bapuraj Arvind Rao Nicholas Wang Ota Yoshiaki Toshio Moritani Sevcan Turk Joonsang Lee Snehal Prabhudesai Fanny Morón Jacob Mandel Konstantinos Kamnitsas Ben Glocker Luke V M Dixon Matthew Williams Peter Zamp Center for Biomedical Image Computing and Analytics (CBICA) University of Pennsylvania Philadelphia PA USA. Department of Radiology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania Philadelphia PA USA. Department of Informatics Technical University of Munich Munich Bavaria Germany. Intel Corporation Santa Clara CA USA. Department of Neuroradiology Heidelberg University Hospital Heidelberg Germany. Clinical Cooperation Unit Neuropathology German Cancer Consortium (DKTK) within the German Cancer Research Center (DKFZ) Heidelberg Germany. Department of Neuropathology Heidelberg University Hospital Heidelberg Germany. Division of Medical Image Computing German Cancer Research Center Heidelberg Germany. Pattern Analysis and Learning Group Department of Radiation Oncology Heidelberg University Hospital Heidelberg Germany. Neurology Clinic Heidelberg University Hospital Heidelberg Germany. Department of Radiology & Biomedical Imaging University of California San Francisco San Francisco CA USA. Symbiosis Center for Medical Image Analysis Symbiosis International University Pune Maharashtra India. Department of Neuroimaging and Interventional Radiology National Institute of Mental Health and Neurosciences Bangalore Karnataka India. Department of Radiology School of Medicine and Public Health University of Wisconsin Madison WI USA. Department of Medical Physics School of Medicine and Public Health University of Wisconsin Madison WI USA. Leeds Teaching Hospitals Trust Department of Radiology Leeds UK. Department of Radiology Brigham and Women's Hospital Harvard Medical School Boston MA USA. Athinoula A. Martinos Center for Biomedical Imaging Massachusetts General Hospital Charlestown MA USA. Catalan Institute of Oncology Badalona Spain. Consorci MAR Parc de Salut de Barcelona Catalonia Spain. Department of Radiology (IDI

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Investigating different syntactic context types and context representations for learning word embeddings

Investigating different syntactic context types and context ...

引用

2017 Conference on Empirical Methods in Natural Language Processing, EMNLP 2017

作者： Li, Bofang Liu, Tao Zhao, Zhe Tang, Buzhou Drozd, Aleksandr Rogers, Anna Du, Xiaoyong School of Information Renmin University of China China Key Laboratory of Data Engineering and Knowledge Engineering MOE China Shenzhen Graduate School Harbin Institute of Technology China Global Scientific Information and Computing Center Tokyo Institute of Technology China Department of Computer Science University of Massachusetts Lowell United States

ISBN: (纸本)9781945626838

The number of word embedding models is growing every year. Most of them are based on the co-occurrence information of words and their contexts. However, it is still an open question what is the best definition of context. We provide a systematical investigation of 4 different syntactic context types and context representations for learning word embeddings. Comprehensive experiments are conducted to evaluate their effectiveness on 6 extrinsic and intrinsic tasks. We hope that this paper, along with the published code, would be helpful for choosing the best context type and representation for a given task. © 2017 Association for Computational Linguistics.

关键词： Embeddings

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Author Correction: Genomic footprints of activated telomere maintenance mechanisms in cancer (Dec, 10.1038/s41467-019-13824-9, 2022)

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NATURE COMMUNICATIONS 2022年第1期13卷 1-1页

作者： Sieverling, Lina Hong, Chen Koser, Sandra D. Ginsbach, Philip Kleinheinz, Kortine Hutter, Barbara Braun, Delia M. Cortes-Ciriano, Isidro Xi, Ruibin Kabbe, Rolf Park, Peter J. Eils, Roland Schlesner, Matthias Brors, Benedikt Rippe, Karsten Jones, David T. W. Feuerbach, Lars Division of Applied Bioinformatics German Cancer Research Center (DKFZ) 69120 Heidelberg Germany Faculty of Biosciences Heidelberg University 69120 Heidelberg Germany Division of Applied Bioinformatics German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Biosciences Heidelberg University Heidelberg Germany Division of Theoretical Bioinformatics German Cancer Research Center (DKFZ) 69120 Heidelberg Germany Department for Bioinformatics and Functional Genomics Institute for Pharmacy and Molecular Biotechnology (IPMB) and BioQuant 69120 Heidelberg Germany Division of Theoretical Bioinformatics German Cancer Research Center (DKFZ) Heidelberg Germany Institute of Pharmacy and Molecular Biotechnology and BioQuant Heidelberg University Heidelberg Germany German Cancer Consortium (DKTK) Heidelberg Germany National Center for Tumor Diseases (NCT) Heidelberg Heidelberg Germany Heidelberg Center for Personalized Oncology (DKFZ-HIPO) German Cancer Research Center (DKFZ) Heidelberg Germany German Cancer Consortium (DKTK) German Cancer Research Center (DKFZ) Heidelberg Germany Division of Chromatin Networks German Cancer Research Center (DKFZ) and BioQuant 69120 Heidelberg Germany Department of Biomedical Informatics Harvard Medical School Boston Massachusetts 02115 USA Department of Chemistry Centre for Molecular Science Informatics University of Cambridge Cambridge CB2 1EW UK Ludwig Center at Harvard Medical School Boston Massachusetts 02115 USA Department of Biomedical Informatics Harvard Medical School Boston MA USA Department of Chemistry Centre for Molecular Science Informatics University of Cambridge Cambridge UK Ludwig Center at Harvard Medical School Boston MA USA School of Mathematical Sciences and Center for Statistical Science Peking University Beijing 100871 China Heidelberg University Heidelberg Germany New BIH Digital Health Center Berlin Institute of Health (BIH) and Charité - Universitätsmedizin Berlin Berlin Germany Bioi

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Preface

OpenAccess Series in Informatics

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OpenAccess Series in Informatics 2019年 70卷 IX-X页

作者： Eskevich, Maria de Melo, Gerard Fäth, Christian McCrae, John P. Buitelaar, Paul Chiarcos, Christian Klimek, Bettina Dojchinovski, Milan CLARIN ERIC Utrecht Netherlands Department of Computer Science Rutgers University New BrunswickNJ United States Applied Computational Linguistics Goethe University Frankfurt Germany Insight Centre for Data Analytics National University of Ireland Galway Ireland Agile Knowledge Engineering and Semantic Web University of Leipzig Germany

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Global burden of 369 diseases and injuries in 204 countries and territories, 1990–2019: a systematic analysis for the Global Burden of Disease Study 2019

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The Lancet 2020年第10258期396卷 1204-1222页

作者： Abbafati, Cristiana Abbas, Kaja M. Abbasi, Mohammad Abbasifard, Mitra Abbasi-Kangevari, Mohsen Abbastabar, Hedayat Abd-Allah, Foad Abdelalim, Ahmed Abdollahi, Mohammad Abdollahpour, Ibrahim Abedi, Aidin Abedi, Parisa Abegaz, Kedir Hussein Abolhassani, Hassan Abosetugn, Akine Eshete Aboyans, Victor Abrams, Elissa M. Abreu, Lucas Guimarães Abrigo, Michael R.M. Abu Haimed, Abdulaziz Khalid Abualhasan, Ahmed Abu-Gharbieh, Eman Abu-Raddad, Laith Jamal Abushouk, Abdelrahman I. Acebedo, Alyssa Ackerman, Ilana N. Adabi, Maryam Adair, Tim Adamu, Abdu A. Adebayo, Oladimeji M. Adedeji, Isaac Akinkunmi Adekanmbi, Victor Adelson, Jaimie D. Adeoye, Abiodun Moshood Adetokunboh, Olatunji O. Adham, Davoud Advani, Shailesh M. Afarideh, Mohsen Afshari, Mahdi Afshin, Ashkan Agardh, Emilie E. Agarwal, Gina Agasthi, Pradyumna Agesa, Kareha M. Aghaali, Mohammad Aghamir, Seyed Mohammad Kazem Agrawal, Anurag Ahmad, Tauseef Ahmadi, Alireza Ahmadi, Keivan Ahmadi, Mehdi Ahmadieh, Hamid Ahmadpour, Ehsan Ahmed, Muktar Beshir Aji, Budi Akalu, Temesgen Yihunie Akinyemi, Rufus Olusola Akinyemiju, Tomi Akombi, Blessing Akunna, Chisom Joyqueenet Alahdab, Fares Al-Aly, Ziyad Alam, Khurshid Alam, Noore Alam, Samiah Alam, Tahiya Alanezi, Fahad Mashhour Alanzi, Turki M. Albertson, Samuel B. Alcalde-Rabanal, Jacqueline Elizabeth Alema, Niguse Meles Alemu, Biresaw Wassihun Alemu, Yihun Mulugeta Alhabib, Khalid F. Alhassan, Robert Kaba Ali, Muhammad Ali, Saqib Alicandro, Gianfranco Alijanzadeh, Mehran Alinia, Cyrus Alipour, Vahid Alizade, Hesam Aljunid, Syed Mohamed Alla, François Allebeck, Peter Almadi, Majid Abdulrahman Hamad Almasi, Ali Almasi-Hashiani, Amir Almasri, Nihad A. Al-Mekhlafi, Hesham M. Almulhim, Abdulaziz M. Alonso, Jordi Al-Raddadi, Rajaa M. Altirkawi, Khalid A. Alumran, Arwa Khalid Alvis-Guzman, Nelson Alvis-Zakzuk, Nelson J. Amare, Azmeraw T. Amare, Bekalu Amini, Saeed Amini-Rarani, Mostafa Aminorroaya, Arya Amiri, Fatemeh Amit, Arianna Maever L. Amugsi, Dickson A. Amul, Gianna Gayle Herrera Anbesu, Etsay Woldu Ancuceanu, Robert Anderl Department of Juridical and Economic Studies La Sapienza University Rome Italy Department of Infectious Disease Epidemiology London School of Hygiene and Tropical Medicine London United Kingdom Social Determinants of Health Research Center Tehran Iran Department of Neurology Cairo University Cairo Egypt School of Pharmacy Tehran Iran The Institute of Pharmaceutical Sciences (TIPS) Tehran Iran Neuroscience Research Center Isfahan University of Medical Sciences Isfahan Iran Biostatistics Department Near East University Nicosia Cyprus Biostatistics and Health Informatics Madda Walabu University Bale Robe Ethiopia Research Center for Immunodeficiencies Tehran Iran Karolinska University Hospital Huddinge Sweden Department of Cardiology Dupuytren University Hospital Limoges France University of Limoges Limoges France Department of Pediatric Dentistry Federal University of Minas Gerais Belo Horizonte Brazil Department of Research Philippine Institute for Development Studies Quezon City Philippines Department of Healthcare Policy and Research Weill Cornell Medical College in Qatar Doha Qatar Harvard Medical School Boston MA United States Department of Medicine Ain Shams University Cairo Egypt Hamadan University of Medical Sciences Hamadan Iran School of Medicine Cardiff University Cardiff United Kingdom School of Laboratory Medicine and Science University College Hospital Ibadan Ibadan Nigeria Institute of Cardiovascular Diseases University of Ibadan Ibadan Nigeria Centre of Excellence for Epidemiological Modelling and Analysis Stellenbosch University Cape Town South Africa Department of Global Health Stellenbosch University Cape Town South Africa School of Health Ardabil University of Medical Science Ardabil Iran Social Behavioral Research Branch National Institute of Health Bethesda MD United States Department of Oncology Georgetown University Washington DC DC United States Department of Health Metrics Sciences School of Medicine Seattle WA

Background: In an era of shifting global agendas and expanded emphasis on non-communicable diseases and injuries along with communicable diseases, sound evidence on trends by cause at the national level is essential. The Global Burden of Diseases, Injuries, and Risk Factors Study (GBD) provides a systematic scientific assessment of published, publicly available, and contributed data on incidence, prevalence, and mortality for a mutually exclusive and collectively exhaustive list of diseases and injuries. Methods: GBD estimates incidence, prevalence, mortality, years of life lost (YLLs), years lived with disability (YLDs), and disability-adjusted life-years (DALYs) due to 369 diseases and injuries, for two sexes, and for 204 countries and territories. Input data were extracted from censuses, household surveys, civil registration and vital statistics, disease registries, health service use, air pollution monitors, satellite imaging, disease notifications, and other sources. Cause-specific death rates and cause fractions were calculated using the Cause of Death Ensemble model and spatiotemporal Gaussian process regression. Cause-specific deaths were adjusted to match the total all-cause deaths calculated as part of the GBD population, fertility, and mortality estimates. Deaths were multiplied by standard life expectancy at each age to calculate YLLs. A Bayesian meta-regression modelling tool, DisMod-MR 2.1, was used to ensure consistency between incidence, prevalence, remission, excess mortality, and cause-specific mortality for most causes. Prevalence estimates were multiplied by disability weights for mutually exclusive sequelae of diseases and injuries to calculate YLDs. We considered results in the context of the Socio-demographic Index (SDI), a composite indicator of income per capita, years of schooling, and fertility rate in females younger than 25 years. Uncertainty intervals (UIs) were generated for every metric using the 25th and 975th ordered 1000 draw value

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How China Deals with Big data

引用

Annals of data science 2017年第4期4卷 433-440页

作者： Shi, Yong Shan, Zhiguang Li, Jianping Fang, Yufei School of Economics and Management University of Chinese Academy of Sciences Beijing100190 China Key Laboratory of Big Data Mining and Knowledge Management Chinese Academy of Sciences Beijing China Informatization Research Department State Information Center Beijing100045 China Institute of Policy and Management Chinese Academy of Sciences Beijing100190 China School of Computer and Communication Engineering University of Science and Technology Beijing100083 China Informatization Research Department State Information Center Beijing100045 China

On September 5, 2015, the State Council of Chinese Government, China’s cabinet formally announced its Action Framework for Promoting Big data (***, 2015). This is the milestone for China to catch up the global wave of big data. Since 2012 big data became a hot issue for scientific communities as well as the governments of many countries (Lazer et al. in science 343:1203–1205, 2014;Einav et al. in science 345:715, 2014;Cate in science 346:818, 2014;Khoury and Ioannidis in science 346:1054–1055, 2014). At the 2013 G8 Summit, the leaders of Canada, France, Germany, Italy, Japan, Russia, U.S.A. and United Kingdom agreed on an "open government plan" (***/government/publications/open-data-charter/g8-open-data-charter-and-technical-annex, 2013). China’s framework, however, mainly emphasizes the integration of all trans-departmental data and establishes a number of government-driven national big data platforms so as to provide big data services to research, public and enterprises. The framework not only demonstrates a strong commitment of the Chinese government on big data, but also covers a wide range of governmental branches, enterprises and institutions far more than that of other countries. In addition, the framework shows an interpretation of big data that differs from other countries. If its objective is achieved, China would become a strong "big data country". © 2017, Springer-Verlag GmbH Germany, part of Springer Nature.

关键词： Big data

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Towards collaborative conceptual exploration

arXiv

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arXiv 2017年

作者： Hanika, Tom Zumbrägel, Jens Knowledge and Data Engineering Group University of Kassel Germany Interdisciplinary Research Center for Information System Design University of Kassel Germany Faculty of Computer Science and Mathematics University of Passau Germany

In domains with high knowledge distribution a natural objective is to create principle foundations for collaborative interactive learning environments. We present a first mathematical characterization of a collaborative learning group, a consortium, based on closure systems of attribute sets and the well-known attribute exploration algorithm from formal concept analysis. To this end, we introduce (weak) local experts for subdomains of a given knowledge domain. These entities are able to refute and potentially accept a given (implicational) query for some closure system that is a restriction of the whole domain. On this we build up a consortial expert and show first insights about the ability of such an expert to answer queries. Furthermore, we depict techniques on how to cope with falsely accepted implications and on combining counterexamples. Using notions from combinatorial design theory we further expand those insights as far as providing first results on the decidability problem if a given consortium is able to explore some target domain. Applications in conceptual knowledge acquisition as well as in collaborative interactive ontology learning are at *** Codes 03G10 68T27 Copyright © 2017, The Authors. All rights reserved.

关键词： Learning systems

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Approximate inference for constructing astronomical catalogs from images

arXiv

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arXiv 2018年

作者： Regier, Jeffrey Miller, Andrew C. Schlegel, David Adams, Ryan P. McAuliffe, Jon D. Prabhat Department of Electrical Engineering and Computer Sciences University of California Berkeley 465 Soda Hall BerkeleyCA94720 United States Data Science Institute Columbia University 3227 Broadway New YorkNY10027 United States Lawrence Berkeley National Laboratory 1 Cyclotron Road BerkeleyCA94720 United States Princeton University Department of Computer Science 35 Olden Street PrincetonNJ08540 United States Department of Statistics University of California Berkeley 367 Evans Hall BerkeleyCA94720 United States Voleon Group

We present a new, fully generative model for constructing astronomical catalogs from optical telescope image sets. Each pixel intensity is treated as a random variable with parameters that depend on the latent properties of stars and galaxies. These latent properties are themselves modeled as random. We compare two procedures for posterior inference. One procedure is based on Markov chain Monte Carlo (MCMC) while the other is based on variational inference (VI). The MCMC procedure excels at quantifying uncertainty, while the VI procedure is 1000 times faster. On a supercomputer, the VI procedure efficiently uses 665,000 CPU cores to construct an astronomical catalog from 50 terabytes of images in 14.6 minutes, demonstrating the scaling characteristics necessary to construct catalogs for upcoming astronomical *** Codes 62P35 Copyright © 2018, The Authors. All rights reserved.

关键词： Supercomputers

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Correction to: Development and clinical validation of inertial sensor-based gait-clustering methods in Parkinson's disease

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Journal of neuroengineering and rehabilitation 2019年第1期16卷 98页

作者： An Nguyen Nils Roth Nooshin Haji Ghassemi Julius Hannink Thomas Seel Jochen Klucken Heiko Gassner Bjoern M Eskofier Machine Learning and Data Analytics Lab Department of Computer Science Friedrich-Alexander-University Erlangen-Nürnberg (FAU) Carl-Thiersch-Straße 2b 91052 Erlangen Germany. an.nguyen@fau.de. Machine Learning and Data Analytics Lab Department of Computer Science Friedrich-Alexander-University Erlangen-Nürnberg (FAU) Carl-Thiersch-Straße 2b 91052 Erlangen Germany. Control Systems Group Department of Electrical Engineering and Computer Science Technische Universität Berlin (TUB) Einsteinufer 17 10587 Berlin Germany. Department of Molecular Neurology University Hospital Erlangen Friedrich-Alexander University Erlangen-Nürnberg (FAU) Schwabachanlage 6 91054 Erlangen Germany.

The original article [1] contained an error whereby Fig. 6 contained a minor shading glitch affecting its presentation. This has now been corrected.

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Keep Your Friends Close and Your Colleagues Nearby: The Hidden Ties That Improve STEM Education

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Change 2019年第1期51卷 42页

作者： Mestre, Jose P. Herman, Geoffrey L. Tomkin, Jonathan H. West, Matthew Jose P. Mestre (mestre@illinois.edu). A theoretical nuclear physicist by training Mestre’s research focuses on the learning of physics contributing in areas such as the acquisition and use of knowledge by experts and novices transfer of learning problem solving and instructional design. He has offered Congressional testimony on The Science of Learning has published numerous articles and books and is a Fellow of the American Physical Society.http://***/0000-0003-2110-1954 Geoffrey L. Herman (glherman@illinois.edu). Herman has a Ph.D. in Electrical and Computer Engineering and is a Teaching Assistant Professor in Computer Science and a Research Assistant Professor in the Department of Curriculum & Instruction at the University of Illinois. His research focuses on how students learn engineering and computing concepts and studying processes for creating systemic instructional change in college settings. Previously he was a postdoctoral researcher in Engineering Education at Purdue University.http://***/0000-0002-9501-2295 Jonathan H. Tomkin (tomkin@illinois.edu). Tomkin is a mathematically based geoscientist with two research focus areas: first he uses models and large data sets to determine how climates glaciers tectonics and landscapes interact. Second he explores how new technological and organizational approaches can improve STEM education. He produced the first geoscience MOOC is the editor of an open-source textbook and has published widely in both geoscience and STEM education. Matthew West (mwest@illinois.edu). Matthew West is an Associate Professor of Mechanical Science and Engineering at the University of Illinois with research interests in scientific computing that include time integration of deterministic and stochastic systems distributed computation and particle methods for simulation and estimation. In education he researches computer-based assessment and the development of innovative teaching cultures. Professor West is a University of Illinois Distinguished Teacher-Scholar and Colleg

A science department on the campus of the University of Illinois has received numerous national awards for excellence in undergraduate teaching. The secret to their success? For nearly two decades, they have collaboratively used evidence-based instructional practices (EBIP) in their introductory level courses. Despite these successes and efforts to spread their EBIP, no other departments followed this department's lead. Then, suddenly six years ago, many instructors from other departments began adopting EBIP in their classrooms. This article asks what was the catalyst for this change? Why had previous attempts at institutional change failed? The authors answer these questions by analyzing their efforts to transform the teaching practices in large-enrollment science and engineering introductory courses on their campus.

关键词： STEM Education Evidence Based Practice Teaching Methods Undergraduate Study College Faculty Educational Change Communities of Practice Mentors School CultureIllinois

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