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OTTERS: a powerful ...
OTTERS: a powerful TWAS framework leveraging summary-level reference data
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- Dai, Qile (författare)
- Department of Biostatistics and Bioinformatics, Emory University School of Public Health, Atlanta, GA, 30322, USA; Center for Computational and Quantitative Genetics, Department of Human Genetics, Emory University School of Medicine, Atlanta, GA, 30322, USA
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- Zhou, Geyu (författare)
- Program of Computational Biology and Bioinformatics, Yale University, New Haven, CT, 06511, USA
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- Zhao, Hongyu (författare)
- Program of Computational Biology and Bioinformatics, Yale University, New Haven, CT, 06511, USA; Department of Biostatistics, Yale School of Public Health, New Haven, CT, 06520, USA
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- Võsa, Urmo (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Franke, Lude (författare)
- Department of Genetics, University of Groningen, University Medical Center Groningen, 9700 RB, Groningen, The Netherlands; Oncode Institute, 3521 AL, Utrecht, The Netherlands
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- Battle, Alexis (författare)
- Department of Computer Science, and Departments of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, 21218, USA
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- Teumer, Alexander (författare)
- Institute for Community Medicine, University Medicine Greifswald, 17489, Greifswald, Germany
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- Lehtimäki, Terho (författare)
- Department of Clinical Chemistry, Fimlab Laboratories and Finnish Centre for Cardiovascular Disease Tampere, Faculty of Medicine and Health Technology, Tampere University, Tampere, 33520, Finland
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- Raitakari, Olli T. (författare)
- Centre for Population Health Research, University of Turku and Turku University Hospital, 20520, Turku, Finland; Research Centre of Applied and Preventive Cardiovascular Medicine, University of Turku, 20520, Turku, Finland; Department of Clinical Physiology and Nuclear Medicine, Turku University Hospital, 20521, Turku, Finland
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- Esko, Tõnu (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Agbessi, Mawussé (författare)
- Computational Biology, Ontario Institute for Cancer Research, Toronto, ON, Canada
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- Ahsan, Habibul (författare)
- Department of Public Health Sciences, University of Chicago, Chicago, IL, USA
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- Alves, Isabel (författare)
- Computational Biology, Ontario Institute for Cancer Research, Toronto, ON, Canada
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- Andiappan, Anand Kumar (författare)
- Singapore Immunology Network, Agency for Science Technology and Research, Singapore, Singapore
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- Arindrarto, Wibowo (författare)
- Leiden University Medical Center, Leiden, The Netherlands
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- Awadalla, Philip (författare)
- Computational Biology, Ontario Institute for Cancer Research, Toronto, ON, Canada
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- Battle, Alexis (författare)
- Institute for Community Medicine, University Medicine Greifswald, 17489, Greifswald, Germany
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- Beutner, Frank (författare)
- Heart Center Leipzig, Universität Leipzig, Leipzig, Germany
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- Jan Bonder, Marc (författare)
- Department of Genetics, University of Groningen, University Medical Center Groningen, 9700 RB, Groningen, The Netherlands; European Molecular Biology Laboratory, Genome Biology Unit, 69117, Heidelberg, Germany
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- Boomsma, Dorret I. (författare)
- Department of Biological Psychology, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
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- Christiansen, Mark W. (författare)
- Cardiovascular Health Research Unit, University of Washington, Seattle, WA, USA
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- Claringbould, Annique (författare)
- Department of Genetics, University of Groningen, University Medical Center Groningen, 9700 RB, Groningen, The Netherlands; Oncode Institute, 3521 AL, Utrecht, The Netherlands
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- Deelen, Patrick (författare)
- Department of Genetics, University of Groningen, University Medical Center Groningen, 9700 RB, Groningen, The Netherlands; Oncode Institute, 3521 AL, Utrecht, The Netherlands; Genomics Coordination Center, University Medical Centre Groningen, Groningen, The Netherlands; Department of Genetics, University Medical Centre Utrecht, P.O. Box 85500, 3508 GA, Utrecht, The Netherlands
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- Favé, Marie-Julie (författare)
- Computational Biology, Ontario Institute for Cancer Research, Toronto, ON, Canada
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- Frayling, Timothy (författare)
- Genetics of Complex Traits, University of Exeter Medical School, Royal Devon & Exeter Hospital, Exeter, UK
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- Gharib, Sina A. (författare)
- Cardiovascular Health Research Unit, University of Washington, Seattle, WA, USA; Department of Medicine, University of Washington, Seattle, WA, USA
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- Gibson, Greg (författare)
- School of Biological Sciences, Georgia Tech, Atlanta, GA, USA
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- Heijmans, Bastiaan T. (författare)
- Leiden University Medical Center, Leiden, The Netherlands
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- Hemani, Gibran (författare)
- MRC Integrative Epidemiology Unit, University of Bristol, Bristol, UK
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- Jansen, Rick (författare)
- Amsterdam UMC, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
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- Kähönen, Mika (författare)
- Department of Clinical Physiology, Tampere University Hospital and Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland
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- Kalnapenkis, Anette (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Kasela, Silva (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Kettunen, Johannes (författare)
- University of Helsinki, Helsinki, Finland
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- Kim, Yungil (författare)
- Department of Computer Science, and Departments of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, 21218, USA; Genetics and Genomic Science Department, Icahn School of Medicine at Mount Sinai, New York, NY, USA
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- Kirsten, Holger (författare)
- Institut für Medizinische InformatiK, Statistik und Epidemiologie, LIFE – Leipzig Research Center for Civilization Diseases, Universität Leipzig, Leipzig, Germany
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- Kovacs, Peter (författare)
- IFB Adiposity Diseases, Universität Leipzig, Leipzig, Germany
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- Krohn, Knut (författare)
- Interdisciplinary Center for Clinical Research, Faculty of Medicine, Universität Leipzig, Leipzig, Germany
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- Kronberg, Jaanika (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Kukushkina, Viktorija (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Kutalik, Zoltan (författare)
- Lausanne University Hospital, Lausanne, Switzerland
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- Lee, Bernett (författare)
- Singapore Immunology Network, Agency for Science Technology and Research, Singapore, Singapore
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- Loeffler, Markus (författare)
- Institut für Medizinische InformatiK, Statistik und Epidemiologie, LIFE – Leipzig Research Center for Civilization Diseases, Universität Leipzig, Leipzig, Germany
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- Marigorta, Urko M. (författare)
- School of Biological Sciences, Georgia Tech, Atlanta, GA, USA; Integrative Genomics Lab, CIC bioGUNE, Bizkaia Science and Technology Park, Derio, Bizkaia, Basque Country, Spain; IKERBASQUE, Basque Foundation for Science, Bilbao, Spain
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- Mei, Hailang (författare)
- Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands
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- Milani, Lili (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Montgomery, Grant W. (författare)
- Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD, Australia
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- Müller-Nurasyid, Martina (författare)
- Institute of Genetic Epidemiology, Helmholtz Zentrum München – German Research Center for Environmental Health, Neuherberg, Germany; Department of Medicine I, University Hospital Munich, Ludwig Maximilian’s University, München, Germany; DZHK (German Centre for Cardiovascular Research), partner site Munich Heart Alliance, Munich, Germany
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- Nauck, Matthias (författare)
- Institute of Clinical Chemistry and Laboratory Medicine, Greifswald University Hospital, Greifswald, Germany; German Center for Cardiovascular Research (partner site Greifswald), Greifswald, Germany
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- Nivard, Michel G. (författare)
- Department of Biological Psychology, Faculty of Behaviour and Movement Sciences, VU, Amsterdam, The Netherlands
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- Penninx, Brenda (författare)
- Amsterdam UMC, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
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- Perola, Markus (författare)
- National Institute for Health and Welfare, University of Helsinki, Helsinki, Finland
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- Pervjakova, Natalia (författare)
- Estonian Genome Centre, Institute of Genomics, University of Tartu, 50090, Tartu, Estonia
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- Pierce, Brandon L. (författare)
- Department of Public Health Sciences, University of Chicago, Chicago, IL, USA
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- Powell, Joseph (författare)
- Garvan Institute of Medical Research, Garvan-Weizmann Centre for Cellular Genomics, Sydney, NSW, Australia
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- Prokisch, Holger (författare)
- Institute of Neurogenomics, Helmholtz Zentrum München, Neuherberg, Germany; Institute of Human Genetics, Technical University Munich, Munich, Germany
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- Psaty, Bruce M. (författare)
- Cardiovascular Health Research Unit, University of Washington, Seattle, WA, USA; Kaiser Permanente Washington Health Research Institute, Seattle, WA, USA
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- Ripatti, Samuli (författare)
- Statistical and Translational Genetics, University of Helsinki, Helsinki, Finland
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- Rotzschke, Olaf (författare)
- Singapore Immunology Network, Agency for Science Technology and Research, Singapore, Singapore
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- Rüeger, Sina (författare)
- Lausanne University Hospital, Lausanne, Switzerland
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- Saha, Ashis (författare)
- Department of Computer Science, and Departments of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, 21218, USA
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- Scholz, Markus (författare)
- Institut für Medizinische InformatiK, Statistik und Epidemiologie, LIFE – Leipzig Research Center for Civilization Diseases, Universität Leipzig, Leipzig, Germany
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- Schramm, Katharina (författare)
- Institute of Genetic Epidemiology, Helmholtz Zentrum München – German Research Center for Environmental Health, Neuherberg, Germany; Department of Medicine I, University Hospital Munich, Ludwig Maximilian’s University, München, Germany
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- Seppälä, Ilkka (författare)
- Department of Clinical Chemistry, Fimlab Laboratories and Finnish Centre for Cardiovascular Disease Tampere, Faculty of Medicine and Health Technology, Tampere University, Tampere, 33520, Finland
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- Slagboom, Eline P. (författare)
- Leiden University Medical Center, Leiden, The Netherlands
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- Stehouwer, Coen D. A. (författare)
- Department of Internal Medicine and School for Cardiovascular Diseases (CARIM), Maastricht University Medical Center, Maastricht, The Netherlands
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- Stumvoll, Michael (författare)
- Department of Medicine, Universität Leipzig, Leipzig, Germany
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- Sullivan, Patrick (författare)
- Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden
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- ‘t Hoen, Peter A. C. (författare)
- Center for Molecular and Biomolecular Informatics, Radboud Institute for Molecular Life Sciences, Radboud University Medical Center Nijmegen, Nijmegen, The Netherlands
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- Thiery, Joachim (författare)
- Institute for Laboratory Medicine, LIFE – Leipzig Research Center for Civilization Diseases, Universität Leipzig, Leipzig, Germany
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- Tong, Lin (författare)
- Department of Public Health Sciences, University of Chicago, Chicago, IL, USA
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- Tönjes, Anke (författare)
- German Center for Cardiovascular Research (partner site Greifswald), Greifswald, Germany
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- van Dongen, Jenny (författare)
- Department of Biological Psychology, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands
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- van Iterson, Maarten (författare)
- Leiden University Medical Center, Leiden, The Netherlands
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- van Meurs, Joyce (författare)
- Department of Internal Medicine, Erasmus Medical Centre, Rotterdam, The Netherlands
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- Veldink, Jan H. (författare)
- UMC Utrecht Brain Center, University Medical Center Utrecht, Department of Neurology, Utrecht University, Utrecht, The Netherlands
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- Verlouw, Joost (författare)
- Department of Internal Medicine, Erasmus Medical Centre, Rotterdam, The Netherlands
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- Visscher, Peter M. (författare)
- Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD, Australia
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- Völker, Uwe (författare)
- Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald, Greifswald, Germany
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- Westra, Harm-Jan (författare)
- Department of Genetics, University of Groningen, University Medical Center Groningen, 9700 RB, Groningen, The Netherlands; Oncode Institute, 3521 AL, Utrecht, The Netherlands
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- Wijmenga, Cisca (författare)
- Department of Genetics, University of Groningen, University Medical Center Groningen, 9700 RB, Groningen, The Netherlands
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- Yaghootkar, Hanieh (författare)
- Luleå tekniska universitet,Medicinsk vetenskap,Genetics of Complex Traits, University of Exeter Medical School, Royal Devon & Exeter Hospital, Exeter, UK; School of Life Sciences, College of Liberal Arts and Science, University of Westminster, 115 New Cavendish Street, London, UK
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- Yang, Jian (författare)
- Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD, Australia; School of Life Sciences, Westlake University, Hangzhou, Zhejiang, China
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- Zeng, Biao (författare)
- School of Biological Sciences, Georgia Tech, Atlanta, GA, USA
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- Zhang, Futao (författare)
- Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD, Australia
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- Epstein, Michael P. (författare)
- Center for Computational and Quantitative Genetics, Department of Human Genetics, Emory University School of Medicine, Atlanta, GA, 30322, USA
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- Yang, Jingjing (författare)
- Center for Computational and Quantitative Genetics, Department of Human Genetics, Emory University School of Medicine, Atlanta, GA, 30322, USA
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(creator_code:org_t)
- Springer Nature, 2023
- 2023
- Engelska.
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Ingår i: Nature Communications. - : Springer Nature. - 2041-1723. ; 14:1
- Relaterad länk:
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https://doi.org/10.1...
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https://ltu.diva-por... (primary) (Raw object)
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Most existing TWAS tools require individual-level eQTL reference data and thus are not applicable to summary-level reference eQTL datasets. The development of TWAS methods that can harness summary-level reference data is valuable to enable TWAS in broader settings and enhance power due to increased reference sample size. Thus, we develop a TWAS framework called OTTERS (Omnibus Transcriptome Test using Expression Reference Summary data) that adapts multiple polygenic risk score (PRS) methods to estimate eQTL weights from summary-level eQTL reference data and conducts an omnibus TWAS. We show that OTTERS is a practical and powerful TWAS tool by both simulations and application studies.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Medicinsk genetik (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Medical Genetics (hsv//eng)
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- Medical Engineering
- Medicinsk teknik
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Dai, Qile
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Zhou, Geyu
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Zhao, Hongyu
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Võsa, Urmo
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Franke, Lude
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Battle, Alexis
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Teumer, Alexande ...
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Lehtimäki, Terho
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Raitakari, Olli ...
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Esko, Tõnu
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Agbessi, Mawussé
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Ahsan, Habibul
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Alves, Isabel
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Andiappan, Anand ...
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Arindrarto, Wibo ...
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Awadalla, Philip
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Beutner, Frank
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Jan Bonder, Marc
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Boomsma, Dorret ...
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Christiansen, Ma ...
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Claringbould, An ...
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Deelen, Patrick
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Favé, Marie-Juli ...
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Frayling, Timoth ...
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Gharib, Sina A.
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Gibson, Greg
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Heijmans, Bastia ...
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Hemani, Gibran
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Jansen, Rick
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Kähönen, Mika
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Kalnapenkis, Ane ...
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Kasela, Silva
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Kettunen, Johann ...
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Kim, Yungil
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Kirsten, Holger
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Kovacs, Peter
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Krohn, Knut
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Kronberg, Jaanik ...
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Kukushkina, Vikt ...
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Kutalik, Zoltan
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Lee, Bernett
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Loeffler, Markus
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Marigorta, Urko ...
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Mei, Hailang
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Milani, Lili
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Montgomery, Gran ...
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Müller-Nurasyid, ...
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Nauck, Matthias
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Nivard, Michel G ...
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Penninx, Brenda
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Perola, Markus
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Pervjakova, Nata ...
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Pierce, Brandon ...
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Powell, Joseph
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Prokisch, Holger
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Psaty, Bruce M.
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Ripatti, Samuli
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Rotzschke, Olaf
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Rüeger, Sina
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Saha, Ashis
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Scholz, Markus
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Schramm, Kathari ...
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Seppälä, Ilkka
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Slagboom, Eline ...
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Stehouwer, Coen ...
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Stumvoll, Michae ...
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Sullivan, Patric ...
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‘t Hoen, Peter A ...
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Thiery, Joachim
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Tong, Lin
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Tönjes, Anke
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van Dongen, Jenn ...
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van Iterson, Maa ...
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van Meurs, Joyce
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Veldink, Jan H.
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Verlouw, Joost
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Visscher, Peter ...
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Völker, Uwe
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Westra, Harm-Jan
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Wijmenga, Cisca
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Yaghootkar, Hani ...
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Yang, Jian
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Zeng, Biao
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Zhang, Futao
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Epstein, Michael ...
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Yang, Jingjing
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