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检索条件"机构=Applied Mathematics and Computer Science Program"
278 条 记 录,以下是161-170 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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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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OPTIMADE, an API for exchanging materials data
arXiv
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arXiv 2021年
作者: Andersen, Casper W. Armiento, Rickard Blokhin, Evgeny Conduit, Gareth J. Dwaraknath, Shyam Evans, Matthew L. Fekete, Ádám Gopakumar, Abhijith Gražulis, Saulius Merkys, Andrius Mohamed, Fawzi Oses, Corey Pizzi, Giovanni Rignanese, Gian-Marco Scheidgen, Markus Talirz, Leopold Toher, Cormac Winston, Donald Aversa, Rossella Choudhary, Kamal Colinet, Pauline Curtarolo, Stefano Di Stefano, Davide Draxl, Claudia Er, Suleyman Esters, Marco Fornari, Marco Giantomassi, Matteo Govoni, Marco Hautier, Geoffroy Hegde, Vinay Horton, Matthew K. Huck, Patrick Huhs, Georg Hummelshøj, Jens Kariryaa, Ankit Kozinsky, Boris Kumbhar, Snehal Liu, Mohan Marzari, Nicola Morris, Andrew J. Mostofi, Arash A. Persson, Kristin A. Petretto, Guido Purcell, Thomas Ricci, Francesco Rose, Frisco Scheffler, Matthias Speckhard, Daniel Uhrin, Martin Vaitkus, Antanas Villars, Pierre Waroquiers, David Wolverton, Chris Wu, Michael Yang, Xiaoyu École Polytechnique Fédérale de Lausanne Lausanne1015 Switzerland Materials Design and Informatics Unit Department of Physics Chemistry and Biology Linköping University Sweden Tilde Materials Informatics Straßmannstraße 25 Berlin10249 Germany Materials Platform for Data Science Sepapaja 6 Tallinn15551 Estonia Theory of Condensed Matter Group Cavendish Laboratory 19 J.J. Thomson Avenue CambridgeCB3 0HE United Kingdom Lawrence Berkeley Labs BerkeleyCA United States Chemin des Étoiles 8 Louvain-la-Neuve1348 Belgium Department of Physics King's College London London United Kingdom Department of Materials Science and Engineering Northwestern University EvanstonIL60208 United States Institute of Biotechnology Life Science Center Vilnius University Saulétekio av. 7 VilniusLT-10257 Lithuania Institute of Computer Science Faculty of Mathematics and Informatics Vilnius University Naugarduko g. 24 VilniusLT-03225 Lithuania Fritz-Haber-Institut der Max-Planck-Gesellschaft Faradayweg 4-6 Berlin14195 Germany Center for Autonomous Materials Design Duke University DurhamNC27708 United States Department of Mechanical Engineering and Materials Science Duke University DurhamNC27708 United States Humboldt-Universität zu Berlin Institut für Physik and IRIS Adlershof Berlin12489 Germany École Polytechnique Fédérale de Lausanne Sion1951 Switzerland Trieste34136 Italy Hermann-von-Helmholtz-Platz 1 Eggenstein-Leopoldshafen76344 Germany Materials Measurement Laboratory National Institute of Standards and Technology GaithersburgMD20899 United States Ansys 300 Rustat House 62 Clifton Rd CambridgeCB1 7EG United Kingdom De Zaale 20 Eindhoven5612 AJ Netherlands Department of Physics and Science of Advanced Materials Program Central Michigan University Mount PleasantMI48859 United States Argonne National Laboratory LemontIL60439 United States Thayer School of Engineering Dartmouth College HanoverNH03755 United States Los AltosCA940
The Open Databases Integration for Materials Design (OPTIMADE) consortium has designed a universal application programming interface (API) to make materials databases accessible and interoperable. We outline the first... 详细信息
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Patterns of somatic structural variation in human cancer genomes (vol 578, pg 112, 2020)
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NATURE 2023年 第7948期614卷 E38-E38页
作者: Li, Yilong Roberts, Nicola D. Wala, Jeremiah A. Shapira, Ofer Schumacher, Steven E. Kumar, Kiran Khurana, Ekta Waszak, Sebastian Korbel, Jan O. Haber, James E. Imielinski, Marcin Weischenfeldt, Joachim Beroukhim, Rameen Campbell, Peter J. Cancer Genome Project Wellcome Trust Sanger Institute Hinxton UK Totient Inc Cambridge MA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Haematology University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Korea Advanced Institute of Science and Technology Daejeon South Korea Department of Zoology Genetics and Physical Anthropology University of Santiago de Compostela Santiago de Compostela Spain Centre for Research in Molecular Medicine and Chronic Diseases (CIMUS) University of Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) University of Vigo Vigo Spain Centre for Research in Molecular Medicine and Chronic Diseases (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain Department of Zoology Genetics and Physical Anthropology (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) Universidade de Vigo Vigo Spain The Broad Institute of Harvard and MIT Cambridge MA USA Bioinformatics and Integrative Genomics Harvard University Cambridge MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Broad Institute of MIT and Harvard Cambridge MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Harvard Medical School Boston MA USA Massachusetts General Hospital Center for Cancer Research Charlestown MA USA Dana-Farber Cancer Institute Boston MA USA Department of Biostatistics and Computational Biology Dana-Farber Cancer Institute and Harvard Medical School Boston MA USA Weill Cornell Medical College 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 Ne
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The Brain Tumor Segmentation (BraTS) Challenge 2023: Glioma Segmentation in Sub-Saharan Africa Patient Population (BraTS-Africa)
arXiv
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arXiv 2023年
作者: Adewole, Maruf Rudie, Jeffrey D. Gbdamosi, Anu Toyobo, Oluyemisi Raymond, Confidence Zhang, Dong Omidiji, Olubukola Akinola, Rachel Suwaid, Mohammad Abba Emegoakor, Adaobi Ojo, Nancy Aguh, Kenneth Kalaiwo, Chinasa Babatunde, Gabriel Ogunleye, Afolabi Gbadamosi, Yewande Iorpagher, Kator Calabrese, Evan Aboian, Mariam Linguraru, Marius Albrecht, Jake Wiestler, Benedikt Kofler, Florian Janas, Anastasia LaBella, Dominic Kzerooni, Anahita Fathi Li, Hongwei Bran Iglesias, Juan Eugenio Farahani, Keyvan Eddy, James Bergquist, Timothy Chung, Verena Shinohara, Russell Takeshi Wiggins, Walter Reitman, Zachary Wang, Chunhao Liu, Xinyang Jiang, Zhifan Familiar, Ariana Van Leemput, Koen Bukas, Christina Piraud, Maire Conte, Gian-Marco Johansson, Elaine Meier, Zeke Menze, Bjoern H. Baid, Ujjwal Bakas, Spyridon Dako, Farouk Fatade, Abiodun Anazodo, Udunna C. Lagos Nigeria Department of Radiation Biology Radiotherapy and Radiodiagnosis University of Lagos Lagos Nigeria Department of Radiology University of California San Diego United States Crestview Radiology Limited Lagos Nigeria Lagos University Teaching Hospital Lagos Nigeria Lagos State University Teaching Hospital Lagos Ikeja Nigeria NSIA-Kano Diagnostic Center Kano Nigeria Nnamdi Azikiwe University Teaching Hospital Anambra State Nnewi Nigeria Federal Medical Centre Ogun State Abeokuta Nigeria Federal Medical Centre Abia State Umuahia Nigeria National Hospital Abuja FCT Nigeria Benue State University Teaching Hospital Benue State Makurdi Nigeria Duke University Medical Center Department of Radiology United States University of California San FranciscoCA United States Yale University New HavenCT United States Children's National Hospital WashingtonDC United States George Washington University WashingtonDC United States Sage Bionetworks United States Department of Neuroradiology Technical University of Munich Munich Germany Helmholtz Research Center Munich Germany Duke University Medical Center Department of Radiation Oncology United States Children’s Hospital of Philadelphia University of Pennsylvania PhiladelphiaPA United States University of Pennsylvania PhiladelphiaPA United States Athinoula A Martinos Center for Biomedical Imaging Massachusetts General Hospital BostonMA United States University of Zurich Switzerland Cancer Imaging Program National Cancer Institute National Institutes of Health BethesdaMD20814 United States Center for Clinical Epidemiology and Biostatistics University of Pennsylvania Philadelphia United States Department of Applied Mathematics and Computer Science Technical University of Denmark Denmark Mayo Clinic MN United States Precision FDA U.S. Food and Drug Administration Silver SpringMD United States Booz Allen Hamilton McLeanVA United States Department of Radiology Perelman School of Medicine U
Gliomas are the most common type of primary brain tumors. Although gliomas are relatively rare, they are among the deadliest types of cancer, with a survival rate of less than 2 years after diagnosis. Gliomas are chal... 详细信息
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The ASNR-MICCAI Brain Tumor Segmentation (BraTS) Challenge 2023: Intracranial Meningioma
arXiv
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arXiv 2023年
作者: LaBella, Dominic Adewole, Maruf Alonso-Basanta, Michelle Altes, Talissa Anwar, Syed Muhammad Baid, Ujjwal Bergquist, Timothy Bhalerao, Radhika Chen, Sully Chung, Verena Conte, Gian-Marco Dako, Farouk Eddy, James Ezhov, Ivan Godfrey, Devon Hilal, Fathi Familiar, Ariana Farahani, Keyvan Iglesias, Juan Eugenio Jiang, Zhifan Johanson, Elaine Kazerooni, Anahita Fathi Kent, Collin Kirkpatrick, John Koer, Florian Van Leemput, Koen Li, Hongwei Bran Liu, Xinyang Mahtabfar, Aria McBurney-Lin, Shan McLean, Ryan Meier, Zeke Moawad, Ahmed W. Mongan, John Nedelec, Pierre Pajot, Maxence Piraud, Marie Rashid, Arif Reitman, Zachary Shinohara, Russell Takeshi Velichko, Yury Wang, Chunhao Warman, Pranav Wiggins, Walter Aboian, Mariam Albrecht, Jake Anazodo, Udunna Bakas, Spyridon Flanders, Adam Janas, Anastasia Khanna, Goldey Linguraru, Marius George Menze, Bjoern Nada, Ayman Rauschecker, Andreas M. Rudie, Jeff Tahon, Nourel Hoda Villanueva-Meyer, Javier Wiestler, Benedikt Calabrese, Evan Department of Radiation Oncology Duke University Medical Center DurhamNC United States Lab Crestview Radiology Lagos Nigeria Department of Radiation Oncology Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Missouri University ColumbiaMO United States Children's National Hospital WashingtonDC United States George Washington University WashingtonDC United States 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 Sage Bionetworks United States University of California San Francisco CA United States Duke University Medical Center School of Medicine United States Mayo Clinic MN United States Center for Global Health Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Department of Informatics Technical University Munich Germany TranslaTUM Central Institute for Translational Cancer Research Technical University of Munich Germany Children's Hospital of Philadelphia University of Pennsylvania PhiladelphiaPA United States Cancer Imaging Program National Cancer Institute National Institutes of Health BethesdaMD20814 United States Athinoula A Martinos Center for Biomedical Imaging Massachusetts General Hospital BostonMA United States PrecisionFDA U.S. Food and Drug Administration Silver SpringMD United States Helmholtz Ai Helmholtz Munich Germany Department of Diagnostic and Interventional Neuroradiology School of Medicine Klinikum Rechts der Isar Technical University of Munich Germany Department of Applied Mathematics and Computer Science Technical University of Denmark Denmark Department of Neuroradiology Technical University of Munich Munich Germany University of Zurich Switzerland Department of Neurosurgery Thomas Jefferson Univer
Meningiomas are the most common primary intracranial tumor in adults and can be associated with significant morbidity and mortality. Radiologists, neurosurgeons, neuro-oncologists, and radiation oncologists rely on mu... 详细信息
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Dynamics of topological solitons, knotted streamlines, and transport of cargo in liquid crystals
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Physical Review E 2018年 第5期97卷 052701-052701页
作者: Hayley R. O. Sohn Paul J. Ackerman Timothy J. Boyle Ghadah H. Sheetah Bengt Fornberg Ivan I. Smalyukh Soft Materials Research Center and Materials Science and Engineering Program University of Colorado Boulder Colorado 80309 USA Department of Physics and Department of Electrical Computer and Energy Engineering University of Colorado Boulder Colorado 80309 USA Department of Applied Mathematics University of Colorado Boulder Colorado 80309 USA Renewable and Sustainable Energy Institute National Renewable Energy Laboratory and University of Colorado Boulder Colorado 80309 USA
Active colloids and liquid crystals are capable of locally converting the macroscopically supplied energy into directional motion and promise a host of new applications, ranging from drug delivery to cargo transport a... 详细信息
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The repertoire of mutational signatures in human cancer (vol 578, pg 94, 2020)
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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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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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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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