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The repertoire of mutational signatures in human cancer (vol 578, pg 94, 2020)

NATURE 2023年第7948期614卷 E41-E41页

作者： Alexandrov, Ludmil B. Kim, Jaegil Haradhvala, Nicholas J. Huang, Mi Ni Ng, Alvin Wei Tian Wu, Yang Boot, Arnoud Covington, Kyle R. Gordenin, Dmitry A. Bergstrom, Erik N. Islam, S. M. Ashiqul Lopez-Bigas, Nuria Klimczak, Leszek J. McPherson, John R. Morganella, Sandro Sabarinathan, Radhakrishnan Wheeler, David A. Mustonen, Ville Getz, Gad Rozen, Steven G. Stratton, Michael R. Department of Cellular and Molecular Medicine Department of Bioengineering Moores Cancer Center University of California San Diego CA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Cellular and Molecular Medicine and Department of Bioengineering University of California San Diego La Jolla CA USA UC San Diego Moores Cancer Center San Diego CA USA University of California San Diego San Diego CA USA Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Massachusetts General Hospital Boston MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Laboratory for Medical Science Mathematics RIKEN Center for Integrative Medical Sciences Yokohama Japan Computational Biology Program Ontario Institute for Cancer Research Toronto ON Canada Programme in Cancer & Stem Cell Biology Duke-NUS Medical School Singapore Singapore Centre for Computational Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Centre for Computational Biology Duke-NUS Medical School Singapore Singapore SingHealth Duke-NUS Institute of Precision Medicine National Heart Centre Singapore Singapore Singapore Cancer Science Institute of Singapore National University of Singapore Singapore Singapore Institute of Molecular and Cell Biology Singapore Singapore Laboratory of Cancer Epigenome Division of Medical Science National Cancer Centre Singapore Singapore Singapore Duke-NUS Medical School Singapore Singapore Human Genome Sequencing Center Baylor College of Medicine Houston TX USA Dan L. Duncan Cancer Center Baylor College of Medicine Houston TX USA Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA Genome Integrity and Structural Biology Laboratory National Ins

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Publisher Correction: brain charts for the human lifespan

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Nature 2022年第7931期610卷 E6页

作者： R A I Bethlehem J Seidlitz S R White J W Vogel K M Anderson C Adamson S Adler G S Alexopoulos E Anagnostou A Areces-Gonzalez D E Astle B Auyeung M Ayub J Bae G Ball S Baron-Cohen R Beare S A Bedford V Benegal F Beyer J Blangero M Blesa Cábez J P Boardman M Borzage J F Bosch-Bayard N Bourke V D Calhoun M M Chakravarty C Chen C Chertavian G Chetelat Y S Chong J H Cole A Corvin M Costantino E Courchesne F Crivello V L Cropley J Crosbie N Crossley M Delarue R Delorme S Desrivieres G A Devenyi M A Di Biase R Dolan K A Donald G Donohoe K Dunlop A D Edwards J T Elison C T Ellis J A Elman L Eyler D A Fair E Feczko P C Fletcher P Fonagy C E Franz L Galan-Garcia A Gholipour J Giedd J H Gilmore D C Glahn I M Goodyer P E Grant N A Groenewold F M Gunning R E Gur R C Gur C F Hammill O Hansson T Hedden A Heinz R N Henson K Heuer J Hoare B Holla A J Holmes R Holt H Huang K Im J Ipser C R Jack A P Jackowski T Jia K A Johnson P B Jones D T Jones R S Kahn H Karlsson L Karlsson R Kawashima E A Kelley S Kern K W Kim M G Kitzbichler W S Kremen F Lalonde B Landeau S Lee J Lerch J D Lewis J Li W Liao C Liston M V Lombardo J Lv C Lynch T T Mallard M Marcelis R D Markello S R Mathias B Mazoyer P McGuire M J Meaney A Mechelli N Medic B Misic S E Morgan D Mothersill J Nigg M Q W Ong C Ortinau R Ossenkoppele M Ouyang L Palaniyappan L Paly P M Pan C Pantelis M M Park T Paus Z Pausova D Paz-Linares A Pichet Binette K Pierce X Qian J Qiu A Qiu A Raznahan T Rittman A Rodrigue C K Rollins R Romero-Garcia L Ronan M D Rosenberg D H Rowitch G A Salum T D Satterthwaite H L Schaare R J Schachar A P Schultz G Schumann M Schöll D Sharp R T Shinohara I Skoog C D Smyser R A Sperling D J Stein A Stolicyn J Suckling G Sullivan Y Taki B Thyreau R Toro N Traut K A Tsvetanov N B Turk-Browne J J Tuulari C Tzourio É Vachon-Presseau M J Valdes-Sosa P A Valdes-Sosa S L Valk T van Amelsvoort S N Vandekar L Vasung L W Victoria S Villeneuve A Villringer P E Vértes K Wagstyl Y S Wang S K Warfield V Warrier E Westman M L Westwater H C Whalley A V Witte N Yang B Yeo H Y Autism Research Centre Department of Psychiatry University of Cambridge Cambridge UK. rb643@medschl.cam.ac.uk. Brain Mapping Unit Department of Psychiatry University of Cambridge Cambridge UK. rb643@medschl.cam.ac.uk. Department of Psychiatry University of Pennsylvania Philadelphia PA USA. jakob.seidlitz@pennmedicine.upenn.edu. Department of Child and Adolescent Psychiatry and Behavioral Science The Children's Hospital of Philadelphia Philadelphia PA USA. jakob.seidlitz@pennmedicine.upenn.edu. Lifespan Brain Institute The Children's Hospital of Philadelphia and Penn Medicine Philadelphia PA USA. jakob.seidlitz@pennmedicine.upenn.edu. Department of Psychiatry University of Cambridge Cambridge UK. MRC Biostatistics Unit University of Cambridge Cambridge UK. Department of Psychiatry University of Pennsylvania Philadelphia PA USA. Lifespan Informatics & Neuroimaging Center University of Pennsylvania Philadelphia PA USA. Department of Psychology Yale University New Haven CT USA. Developmental Imaging Murdoch Children's Research Institute Melbourne Victoria Australia. Department of Medicine Monash University Melbourne Victoria Australia. UCL Great Ormond Street Institute for Child Health London UK. Weill Cornell Institute of Geriatric Psychiatry Department of Psychiatry Weill Cornell Medicine New York USA. Department of Pediatrics University of Toronto Toronto Canada. Holland Bloorview Kids Rehabilitation Hospital Toronto Canada. The Clinical Hospital of Chengdu Brain Science Institute MOE Key Lab for NeuroInformation University of Electronic Science and Technology of China Chengdu China. University of Pinar del Río "Hermanos Saiz Montes de Oca" Pinar del Río Cuba. MRC Cognition and Brain Sciences Unit University of Cambridge Cambridge UK. Autism Research Centre Department of Psychiatry University of Cambridge Cambridge UK. Department of Psychology School of Philosophy Psychology and Language Sciences University of Edinburgh Edinburgh UK. Queen's

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Online Machine Learning for Big Data Analytics by Cognitive Robots

Online Machine Learning for Big Data Analytics by Cognitive ...

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2016 IEEE International Conference of Online Analysis and Computing Science(ICOACS 2016)

作者： Yingxu Wang FICIC FWIF Information Systems Lab Stanford University Laboratory for Computational Intelligence Denotational Mathematicsand Software Science Dept.of Electrical and Computer EngineeringSchulich School of Engineering and Hotchkiss Brain InstituteUniversity of Calgary

It is recognized that both sources of and solutions to the big data challenges are human collective *** are an abstract representation of the quantity of realistic entities and perceived *** data play an indispensable role not only in a wide range of engineering applications,but also in the cognitive mechanisms of both humans and cognitive robots such as sensation,quantification,qualification,estimation,memory,and *** keynote lecture presents online big data analytic theories by machine learning as well as knowledge extraction by cognitive ***,information,knowledge,and intelligence are the four hierarchical layers of cognitive objects in the brain and cognitive systems from the bottom *** is discovered by the author that,although the cognitive unit of data is bit,that of knowledge is bir,i.e.,a binary relation.A resent finding towards big data science is that big data systems in nature are a recursive ndimensional typed hyperstructure(RNDTHS).This topological property of big data reveals that the mathematical foundation of big data science is underpinned by big data algebra(BDA),which is a denotational mathematical structure for efficiently dealing with the inherited complexities and unprecedented challenges in big data *** leads to a coherent theory for big data modeling,analyses,mining,information elicitation,knowledge extraction,and intelligent generation for cognitive *** experiments demonstrate that cognitive robots may autonomously transform big data in vast linguistic databases(corpuses) into sophistic knowledge bases by cognitive machine learning.

关键词： Big data big data science denotational mathematics mathematical models recursively hierarchical hyperstructures big data algebra cogniitve machine learning formal concepts knowledge extraction knowledge generation cognitive informatics cognitive computing computational intelligence applications

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Identifying the best machine learning algorithms for brain tumor segmentation, progression assessment, and overall survival prediction in the BRATS challenge

arXiv

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arXiv 2018年

作者： Bakas, Spyridon Reyes, Mauricio Jakab, Andras Bauer, Stefan Rempfler, Markus Crimi, Alessandro Shinohara, Russell Takeshi Berger, Christoph Ha, Sung Min Rozycki, Martin Prastawa, Marcel Alberts, Esther Lipkova, Jana Freymann, John Kirby, Justin Bilello, Michel Fathallah-Shaykh, Hassan M. Wiest, Roland Kirschke, Jan Wiestler, Benedikt Colen, Rivka Kotrotsou, Aikaterini Lamontagne, Pamela Marcus, Daniel Milchenko, Mikhail Nazeri, Arash Weber, Marc-Andr Mahajan, Abhishek Baid, Ujjwal Gerstner, Elizabeth Kwon, Dongjin Acharya, Gagan Agarwal, Manu Alam, Mahbubul Albiol, Alberto Albiol, Antonio Albiol, Francisco J. Alex, Varghese Allinson, Nigel Amorim, Pedro H.A. Amrutkar, Abhijit Anand, Ganesh Andermatt, Simon Arbel, Tal Arbelaez, Pablo Avery, Aaron Azmat, Muneeza Pranjal, B. Bai, Wenjia Banerjee, Subhashis Barth, Bill Batchelder, Thomas Batmanghelich, Kayhan Battistella, Enzo Beers, Andrew Belyaev, Mikhail Bendszus, Martin Benson, Eze Bernal, Jose Bharath, Halandur Nagaraja Biros, George Bisdas, Sotirios Brown, James Cabezas, Mariano Cao, Shilei Cardoso, Jorge M. Carver, Eric N. Casamitjana, Adri Castillo, Laura Silvana Cat, Marcel Cattin, Philippe Cérigues, Albert Chagas, Vinicius S. Chandra, Siddhartha Chang, Yi-Ju Chang, Shiyu Chang, Ken Chazalon, Joseph Chen, Shengcong Chen, Wei Chen, Jefferson W. Chen, Zhaolin Cheng, Kun Choudhury, Ahana Roy Chylla, Roger Clrigues, Albert Colleman, Steven Colmeiro, Ramiro German Rodriguez Combalia, Marc Costa, Anthony Cui, Xiaomeng Dai, Zhenzhen Dai, Lutao Daza, Laura Alexandra Deutsch, Eric Ding, Changxing Dong, Chao Dong, Shidu Dudzik, Wojciech Eaton-Rosen, Zach Egan, Gary Escudero, Guilherme Estienne, Tho Everson, Richard Fabrizio, Jonathan Fan, Yong Fang, Longwei Feng, Xue Ferrante, Enzo Fidon, Lucas Fischer, Martin French, Andrew P. Fridman, Naomi Fu, Huan Fuentes, David Gao, Yaozong Gates, Evan Gering, David Gholami, Amir Gierke, Willi Glocker, Ben Gong, Mingming Gonzlez-Vill, Sandra Grosges, T. Guan, Yuanfang Guo, Sheng Gupta, Sudeep Han, Woo-Sup Han, Il Song Harmuth, Ko Center for Biomedical Image Computing and Analytics University of Pennsylvania PhiladelphiaPA United States Department of Radiology Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Institute for Surgical Technology and Biomechanics University of Bern Bern Switzerland Center for MR-Research University Children's Hospital Zurich Zurich Switzerland Support Centre for Advanced Neuroimaging Inselspital Institute for Diagnostic and Interventional Neuroradiology Bern University Hospital Bern Switzerland University Hospital of Zurich Zurich Switzerland Center for Clinical Epidemiology and Biostatistics University of Pennsylvania Philadelphia United States Image-Based Biomedical Modeling Group Technical University of Munich Munich Germany Icahn School of Medicine Mount Sinai Health System New YorkNY United States Leidos Biomedical Research Inc. Frederick National Laboratory for Cancer Research FrederickMD21701 United States Cancer Imaging Program National Cancer Institute National Institutes of Health BethesdaMD20814 United States Department of Neurology University of Alabama at Birmingham BirminghamAL United States Department of Diagnostic Radiology University of Texas MD Anderson Cancer Center HoustonTX United States Department of Psychology Washington University St. LouisMO United States Neuroimaging Informatics and Analysis Center Washington University St. LouisMO United States Department of Radiology Washington University St. LouisMO United States Institute of Diagnostic and Interventional Radiology Pediatric Radiology and Neuroradiology University Medical Center Rostock Ernst-Heydemann-Str. 6 Rostock18057 Germany Tata Memorial Centre Homi Bhabha National Institute Mumbai India Shri Guru Gobind Singhji Institute of Engineering and Technology Nanded India NVIDIA Santa Clara

Gliomas are the most common primary brain malignancies, with different degrees of aggressiveness, variable prognosis and various heterogeneous histologic sub-regions, i.e., peritumoral edematous/invaded tissue, necrotic core, active and non-enhancing core. This intrinsic heterogeneity is also portrayed in their radio-phenotype, as their sub-regions are depicted by varying intensity profiles disseminated across multi-parametric magnetic resonance imaging (mpMRI) scans, reflecting varying biological properties. Their heterogeneous shape, extent, and location are some of the factors that make these tumors difficult to resect, and in some cases inoperable. The amount of resected tumor is a factor also considered in longitudinal scans, when evaluating the apparent tumor for potential diagnosis of progression. Furthermore, there is mounting evidence that accurate segmentation of the various tumor sub-regions can offer the basis for quantitative image analysis towards prediction of patient overall survival. This study assesses the state-of-the-art machine learning (ML) methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International brain Tumor Segmentation (BraTS) challenge, i.e., 2012-2018. Specifically, we focus on i) evaluating segmentations of the various glioma sub-regions in pre-operative mpMRI scans, ii) assessing potential tumor progression by virtue of longitudinal growth of tumor sub-regions, beyond use of the RECIST/RANO criteria, and iii) predicting the overall survival from pre-operative mpMRI scans of patients that underwent gross total resection. Finally, we investigate the challenge of identifying the best ML algorithms for each of these tasks, considering that apart from being diverse on each instance of the challenge, the multi-institutional mpMRI BraTS dataset has also been a continuously evolving/growing dataset. Copyright © 2018, The Authors. All rights reserved.

关键词： Tumors

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26th Annual computational Neuroscience Meeting (CNS*2017) of the Organization for computational Neuroscience Antwerp, Belgium, July 15-20, 2017

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BMC NEUROSCIENCE 2017年第SUPPL 1期18卷 59-59页

作者： [Anonymous] Indiana University Purdue University Indianapolis Indianapolis IN 46032 USA Stark Neurosciences Research Institute Indiana University School of Medicine Indianapolis IN 46032 USA Department of Mathematics East Carolina University Greenville NC 27858 USA Jülich Supercomputing Centre Forschungszentrum Jülich 52425 Jülich Germany Future Systems Swiss National Supercomputing Centre 8092 Zurich Switzerland User Engagement and Support Swiss National Supercomputing Centre 6900 Lugano Switzerland Institut de Neurosciences des Systèmes Aix Marseille Univ 13005 Marseille France Simulation Lab Neuroscience Forschungszentrum Jülich Jülich Germany Department of Experimental Psychology Ghent University 9000 Ghent Belgium Donders Center for Cognitive Neuroimaging Radboud University 6525HR Nijmegen The Netherlands Department of Electrical Computer and Energy Engineering University of Colorado Boulder CO 80309 USA Department of Neurosurgery Johns Hopkins School of Medicine Baltimore MD 21287 USA Department of Neurology Johns Hopkins School of Medicine Baltimore MD 21287 USA Department of Otolaryngology Johns Hopkins School of Medicine Baltimore MD 21287 USA INSERM U968 Paris France Sorbonne Universités UPMC University Paris 06 UMR_S 968 Institut de la Vision Paris France CNRS UMR_7210 Paris France Department of Computer Architecture and Technology University of Granada (CITIC) Granada Spain Sorbonne Universités UPMC Univ Paris 06 INSERM CNRS Institut de la Vision Paris France Department of Adaptive Machine Systems Osaka University Osaka Japan Department of Computer Science University of Cergy-Pontoise Cergy-Pontoise France Department of Physics and Astronomy College of Charleston Charleston SC 29424 USA School of Physics Faculty of Science University of Sydney Sydney NSW 2006 Australia Center of Excellence for Integrative Brain Function Australian Research Council Sydney Australia Max Planck Institute for Human Cognitive and Brain Sciences Saxony Lei

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Segmentation and learning of unknown objects through physical interaction

Segmentation and learning of unknown objects through physica...

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2011 11th IEEE-RAS International Conference on Humanoid Robots, HUMANOIDS 2011

作者： Schiebener, David Ude, Aleš Morimoto, Jun Asfour, Tamim Dillmann, Rüdiger Jožef Stefan Institute Dept. of Automatics Biocybernetics and Robotics Ljubljana Slovenia Department of Brain Robot Interface ATR Computational Neuroscience Laboratories Kyoto Japan Karlsruhe Institute of Technology Humanoids and Intelligence Systems Lab. Karlsruhe Germany

ISBN: (纸本)9781612848679

This paper reports on a new approach for segmentation and learning of new, unknown objects with a humanoid robot. No prior knowledge about the objects or the environment is needed. The only necessary assumptions are firstly, that the object has a (partly) smooth surface that contains some distinctive visual features and secondly, that the object moves as a rigid body. The robot uses both its visual and manipulative capabilities to segment and learn unknown objects in unknown environments. The segmentation algorithm is based on pushing hypothetical objects by the robot, which provides a sufficient amount of information to distinguish the object from the background. In the case of a successful segmentation, additional features are associated with the object over several pushing-and-verification iterations. The accumulated features are used to learn the appearance of the object from multiple viewing directions. We show that the learned model, in combination with the proposed segmentation process, allows robust object recognition in cluttered scenes. © 2011 IEEE.

关键词： Anthropomorphic robots

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Information theory related learning 19

Information theory related learning

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19th European Symposium on Artificial Neural Networks, ESANN 2011

作者： Villmann, T. Cichocki, A. Principe, J. University of Applied Sciences Mittweida Dep. of Mathematics/Natural and Computer Sciences Computational Intelligence Group Technikumplatz 17 Mittweida09648 Germany Riken Brain Sience Institute Lab Advanced Brain Signal Processing 2-1 Hirosawa Wako City Saitama351-0198 Japan University of Florida Computational NeuroEngineering Laboratory GainesvilleFL32611 - United States

ISBN: (纸本)9782874190445

This is the introduction paper to a special session held on ESANN conference 2011. It reviews and highlights recent developments and new direction in information related learning, which is a fastly developing research area. These algorithms are based on the fundamental principles of information theory and relate them implicitly or explicitly to learning algoithms and strategies. © European Symposium on Artificial Neural Networks. All rights reserved.

关键词： Information theory

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Segmentation and learning of unknown objects through physical interaction

Segmentation and learning of unknown objects through physica...

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IEEE-RAS International Conference on Humanoid Robots

作者： David Schiebener Aleš Ude Jun Morimoto Tamim Asfour Rüdiger Dillmann Dept. of Automatics Biocybernetics and Robotics Jožef Stefan Institute Ljubljana Slovenia Department of Automatics ocybernetics and Robotics Jožef Stefan Institute Ljubljana Slovenia Department of Brain Robot Interface ATR Computational Neuroscience Laboratories Kyoto Japan Karlsruhe Institute of Technology Humanoids and Intelligence Systems Lab Karlsruhe Germany

关键词： Histograms Visualization Robots Cameras Reliability Object recognition Image segmentation

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Information theory related learning

Information theory related learning

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作者： Villmann, T. Cichocki, A. Principe, J. University of Applied Sciences Mittweida Dep. of Mathematics/Natural and Computer Sciences Computational Intelligence Group Technikumplatz 17 09648 Mittweida Germany Riken Brain Sience Institute Lab. for Advanced Brain Signal Processing 2-1 Hirosawa Wako City Saitama 351-0198 Japan University of Florida Computational NeuroEngineering Laboratory Gainesville FL 32611 United States

ISBN: (纸本)9782874190445

关键词： Information theory

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