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检索条件"机构=Program in Applied Mathematics and Computational Science"
450 条 记 录,以下是261-270 订阅
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Unsupervised extraction of phenotypes from cancer clinical notes for association studies
arXiv
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arXiv 2019年
作者: Stark, Stefan G. Hyland, Stephanie L. Pradier, Melanie F. Lehmann, Kjong-Van Wicki, Andreas Perez-Cruz, Fernando Vogt, Julia E. Rätsch, Gunnar Computational Biology Program Memorial Sloan Kettering Cancer Center New York United States Tri-Institutional Ph.D. Program in Computational Biology and Medicine Weill Cornell Medicine New York United States Department of Computer Science ETH Zürich Zürich Switzerland Medical Informatics Group University Hospital Zürich Zürich Switzerland Swiss Institute for Bioinformatics Zurich Switzerland Department of Biology ETH Zürich Zürich Switzerland Department of Signal Processing and Information Theory University Carlos III in Madrid Leganés Spain School of Engineering and Applied Sciences Harvard University CambridgeMA United States Department of Biomedicine University of Basel Basel Switzerland Tumorzentrum University Hospital Basel Basel Switzerland Swiss Data Science Center ETH Zürich and EPFL Lausanne Switzerland Department of Mathematics and Computer Science University of Basel Basel Switzerland
The recent adoption of Electronic Health Records (EHRs) by healthcare providers has introduced an important source of data that provides detailed and highly specific insights into patient phenotypes over large cohorts... 详细信息
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Beyond trees: Classification with sparse pairwise dependencies
arXiv
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arXiv 2018年
作者: Tenzer, Yaniv Moscovich, Amit Dorn, Mary Frances Nadler, Boaz Spiegelman, Clifford Department of Computer Science and Applied Mathematics Weizmann Institute of Science Rehovot76100 Israel Program in Applied and Computational Mathematics Princeton University PrincetonNJ08544 United States Los Alamos National Laboratory P.O. Box 1663 MS F600 Los AlamosNM87545 United States Department of Statistics Texas A&M University College StationTX77843 United States
Several classification methods assume that the underlying distributions follow tree-structured graphical models. Indeed, trees capture statistical dependencies between pairs of variables, which may be crucial to attai... 详细信息
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Genomic basis for RNA alterations in cancer (vol 578, pg 129, 2020)
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NATURE 2023年 第7948期614卷 E37-E37页
作者: Calabrese, Claudia Davidson, Natalie R. Demircioglu, Deniz Fonseca, Nuno A. He, Yao Lehmann, Kjong-Van Liu, Fenglin Shiraishi, Yuichi Soulette, Cameron M. Urban, Lara Greger, Liliana Li, Siliang Liu, Dongbing Perry, Marc D. Xiang, Qian Zhang, Fan Zhang, Junjun Bailey, Peter Erkek, Serap Hoadley, Katherine A. Hou, Yong Huska, Matthew R. Kilpinen, Helena Korbel, Jan O. Marin, Maximillian G. Markowski, Julia Nandi, Tannistha Pan-Hammarstrom, Qiang Pedamallu, Chandra Sekhar Siebert, Reiner Stark, Stefan G. Su, Hong Tan, Patrick Waszak, Sebastian M. Yung, Christina Zhu, Shida Awadalla, Philip Creighton, Chad J. Meyerson, Matthew Ouellette, B. F. Francis Wu, Kui Yang, Huanming Brazma, Alvis Brooks, Angela N. Goke, Jonathan Ratsch, Gunnar Schwarz, Roland F. Stegle, Oliver Zhang, Zemin European Molecular Biology Laboratory European Bioinformatics Institute Hinxton UK European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources Universidade do Porto Vairão Portugal Berlin Institute for Medical Systems Biology Max Delbruck Center for Molecular Medicine Berlin Germany German Cancer Consortium (DKTK) partner site Berlin Germany German Cancer Research Center (DKFZ) Heidelberg Germany Berlin Institute for Medical Systems Biology Max Delbrück Center for Molecular Medicine Berlin Germany German Cancer Consortium (DKTK) Partner site Berlin Berlin Germany European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Division of Computational Genomics and Systems Genetics German Cancer Research Center (DKFZ) Heidelberg Germany ETH Zurich Zurich Switzerland Memorial Sloan Kettering Cancer Center New York NY USA Weill Cornell Medical College New York NY USA SIB Swiss Institute of Bioinformatics Lausanne Switzerland University Hospital Zurich Zurich Switzerland Computational Biology Center Memorial Sloan Kettering Cancer Center New York NY USA Department of Biology ETH Zurich Zürich Switzerland Department of Computer Science ETH Zurich Zurich Switzerland Korea University Seoul South Korea Computational and Systems Biology Program Memorial Sloan Kettering Cancer Center New York NY USA Department of Physiology and Biophysics Weill Cornell Medicine New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Controlled Department and Institution New York NY USA Englander Institute for Precision Medicine Weill Cornell Medicine New York NY USA National University of Singapore Singapore Singapore Genome Institute of Singapore Singapore Singapore Computational and Systems Biology Genome Institute of Singap
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Geometry-based data generation
arXiv
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arXiv 2018年
作者: Lindenbaum, Ofir Stanley, Jay S. Wolf, Guy Krishnaswamy, Smita Department of Genetics Yale University New HavenCT United States Applied Mathematics Program Yale University New HavenCT United States Computational Biology & Bioinformatics Program Yale University New HavenCT United States Department of Computer Science Yale University New HavenCT United States
We propose a new type of generative model of high-dimensional data that learns a manifold geometry of the data, rather than density, and can generate points evenly along this manifold. This is in contrast to existing ... 详细信息
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Effect of imperfections on the hyperuniformity of many-body systems
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Physical Review B 2018年 第5期97卷 054105-054105页
作者: Jaeuk Kim Salvatore Torquato Department of Physics Princeton University Princeton New Jersey 08544 USA Department of Chemistry Princeton University Princeton New Jersey 08544 USA Princeton Institute for the Science and Technology of Materials Princeton University Princeton New Jersey 08544 USA Program in Applied and Computational Mathematics Princeton University Princeton New Jersey 08544 USA
A hyperuniform many-body system is characterized by a structure factor Sk that vanishes in the small-wave-number limit or equivalently by a local number variance σN2R associated with a spherical window of radius R th... 详细信息
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The evolutionary history of 2,658 cancers (vol 578, pg 122, 2020)
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NATURE 2023年 第7948期614卷 E42-E42页
作者: Gerstung, Moritz Jolly, Clemency Leshchiner, Ignaty Dentro, Stefan C. Gonzalez, Santiago Rosebrock, Daniel Mitchell, Thomas J. Rubanova, Yulia Anur, Pavana Yu, Kaixian Tarabichi, Maxime Deshwar, Amit Wintersinger, Jeff Kleinheinz, Kortine Vazquez-Garcia, Ignacio Haase, Kerstin Jerman, Lara Sengupta, Subhajit Macintyre, Geoff Malikic, Salem Donmez, Nilgun Livitz, Dimitri G. Cmero, Marek Demeulemeester, Jonas Schumacher, Steven Fan, Yu Yao, Xiaotong Lee, Juhee Schlesner, Matthias Boutros, Paul C. Bowtell, David D. Zhu, Hongtu Getz, Gad Imielinski, Marcin Beroukhim, Rameen Sahinalp, S. Cenk Ji, Yuan Peifer, Martin Markowetz, Florian Mustonen, Ville Yuan, Ke Wang, Wenyi Morris, Quaid D. Spellman, Paul T. Wedge, David C. Van Loo, Peter European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Wellcome Sanger Institute Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany University of Ljubljana Ljubljana Slovenia The Francis Crick Institute London UK Big Data Institute University of Oxford Oxford UK Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Big Data Institute Li Ka Shing Centre University of Oxford Oxford UK University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Department of Applied Mathematics and Theoretical Physics Centre for Mathematical Sciences University of Cambridge Cambridge UK Department of Epidemiology and Biostatistics Memorial Sloan Kettering Cancer Center New York NY USA Department of Statistics Columbia University New York NY USA Department of Haematology University of Cambridge Cambridge UK University of Leuven Leuven Belgium Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Charlestown MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Dana-Farber Cancer Institute Boston MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Oxford NIHR Biomedical Research Centre Oxford UK Oxford NIHR Biomedical Research Centre University of Oxford Oxford UK University of Toronto Toronto Ontario Canada Vector Institute Toronto Ontario Canada Vector Institute Toronto ON Canada Department of Computer Science University of Toronto Toronto ON Canada Ontario Institute for Cancer Research Toronto Ontario Canada University of California Los Angeles
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Light Localization in Local Isomorphism Classes of Quasicrystals
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Physical Review Letters 2018年 第24期120卷 247401-247401页
作者: Chaney Lin Paul J. Steinhardt Salvatore Torquato Department of Physics Princeton University Princeton New Jersey 08544 USA Princeton Center for Theoretical Science Princeton University Princeton New Jersey 08544 USA Department of Chemistry Princeton University Princeton New Jersey 08544 USA Program of Applied and Computational Mathematics Princeton University Princeton New Jersey 08544 USA Princeton Institute for the Science and Technology of Materials Princeton University Princeton New Jersey 08544 USA
We study a continuum of photonic quasicrystal heterostructures derived from local isomorphism (LI) classes of pentagonal quasicrystal tilings. These tilings are obtained by direct projection from a five-dimensional hy... 详细信息
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Learning binary latent variable models: A tensor eigenpair approach
arXiv
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arXiv 2018年
作者: Jaffe, Ariel Weiss, Roi Carmi, Shai Kluger, Yuval Nadler, Boaz Dept. of Computer Science and Applied Mathematics Weizmann Institute of Science Rehovot7610001 Israel Braun School of Public Health and Community Medicine Hebrew University of Jerusalem Jerusalem9112102 Israel Interdepartmental Program in Computational Biology and Bioinformatics Yale University New HavenCT06511 United States Dept. of Pathology Yale Cancer Center Yale University School of Medicine New HavenCT06520 United States Program of Applied Mathematics Yale University New HavenCT06511 United States
Latent variable models with hidden binary units appear in various applications. Learning such models, in particular in the presence of noise, is a challenging computational problem. In this paper we propose a novel sp... 详细信息
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Domain morphology and mechanics of the H/T′ transition metal dichalcogenide monolayers
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Physical Review Materials 2018年 第11期2卷 114002-114002页
作者: Joel Berry Songsong Zhou Jian Han David J. Srolovitz Mikko P. Haataja Department of Materials Science and Engineering University of Pennsylvania Philadelphia Pennsylvania 19104 USA Department of Mechanical and Aerospace Engineering Princeton University Princeton New Jersey 08544 USA Department of Mechanical Engineering and Applied Mechanics University of Pennsylvania Philadelphia Pennsylvania 19104 USA Department of Materials Science and Engineering City University of Hong Kong Hong Kong SAR People's Republic of China Princeton Institute for the Science and Technology of Materials (PRISM) Princeton University Princeton New Jersey 08544 USA Program in Applied and Computational Mathematics (PACM) Princeton University Princeton New Jersey 08544 USA
The properties of two-dimensional (2D) transition metal dichalcogenide (TMD) monolayers can be dynamically controlled via strain-induced displacive structural transformations between semiconducting (H) and metallic or... 详细信息
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Distinct modes of mitochondrial metabolism uncouple T cell differentiation and function (vol 571, pg 403, 2019)
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NATURE 2019年 第7773期573卷 E2-E2页
作者: Bailis, Will Shyer, Justin A. Zhao, Jun Canaveras, Juan Carlos Garcia Al Khazal, Fatimah J. Qu, Rihao Steach, Holly R. Bielecki, Piotr Khan, Omair Jackson, Ruaidhri Kluger, Yuval Maher, Louis J., III Rabinowitz, Joshua Craft, Joe Flavell, Richard A. Department of Immunobiology Yale School of Medicine New Haven USA Department of Pathology Children’s Hospital of Philadelphia Philadelphia USA Department of Pathology Yale School of Medicine New Haven USA Program of Computational Biology and Bioinformatics Yale University New Haven USA Lewis-Sigler Institute for Integrative Genomics Princeton University Princeton USA Department of Chemistry Princeton University Princeton USA Diabetes Research Center University of Pennsylvania Philadelphia USA Department of Biochemistry and Molecular Biology Mayo Clinic College of Medicine and Science Rochester USA Applied Mathematics Program Yale University New Haven USA Department of Internal Medicine (Rheumatology) Yale School of Medicine New Haven USA Howard Hughes Medical Institute Chevy Chase USA
An Amendment to this paper has been published and can be accessed via a link at the top of the paper.
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