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A community-based transcriptomics classification and nomenclature of neocortical cell types

R. Yuste, M. Hawrylycz, N. Aalling, A. Aguilar-Valles, D. Arendt, R. Armañanzas, GA. Ascoli, C. Bielza, V. Bokharaie, TB. Bergmann, I. Bystron, M. Capogna, Y. Chang, A. Clemens, CPJ. de Kock, J. DeFelipe, SE. Dos Santos, K. Dunville, D....

Nature neuroscience. 2020 ; 23 (12) : 1456-1468. [pub] -

Nat Neurosci
ISSN 1546-1726
Medvik
Zdroj

Jazyk angličtina Země Spojené státy americké

Typ dokumentu časopisecké články, práce podpořená grantem, přehledy

Perzistentní odkaz https://www.medvik.cz/link/bmc21011805

Grantová podpora
R01 MH115900 NIMH NIH HHS - United States
R01 EY011787 NEI NIH HHS - United States
R00 MH112855 NIMH NIH HHS - United States
U19 MH114830 NIMH NIH HHS - United States
R01 EY026927 NEI NIH HHS - United States

Online Plný text

NLK ProQuest Central od 2000-01-01 do Před 1 rokem
Health & Medicine (ProQuest) od 2000-01-01 do Před 1 rokem
Psychology Database (ProQuest) od 2000-01-01 do Před 1 rokem

PubMed 32839617
DOI 10.1038/s41593-020-0685-8
Knihovny.cz E-zdroje

To understand the function of cortical circuits, it is necessary to catalog their cellular diversity. Past attempts to do so using anatomical, physiological or molecular features of cortical cells have not resulted in a unified taxonomy of neuronal or glial cell types, partly due to limited data. Single-cell transcriptomics is enabling, for the first time, systematic high-throughput measurements of cortical cells and generation of datasets that hold the promise of being complete, accurate and permanent. Statistical analyses of these data reveal clusters that often correspond to cell types previously defined by morphological or physiological criteria and that appear conserved across cortical areas and species. To capitalize on these new methods, we propose the adoption of a transcriptome-based taxonomy of cell types for mammalian neocortex. This classification should be hierarchical and use a standardized nomenclature. It should be based on a probabilistic definition of a cell type and incorporate data from different approaches, developmental stages and species. A community-based classification and data aggregation model, such as a knowledge graph, could provide a common foundation for the study of cortical circuits. This community-based classification, nomenclature and data aggregation could serve as an example for cell type atlases in other parts of the body.

Allen Institute for Brain Science Seattle WA USA

Bar Ilan University Ramat Gan Israel

Baylor College of Medicine Houston TX USA

BrainScope Company Inc Bethesda MD USA

Cajal Institute Madrid Spain

CARTANA Stockholm Sweden

Centro de Biologia Molecular Severo Ochoa Madrid Spain

Charles University Prague Czech Republic

Christian Albrechts University Kiel Kiel Germany

Cold Spring Harbor Laboratory Laurel Hollow NY USA

Columbia University New York City NY USA

Department of Biomedicine Aarhus University Aarhus Denmark

Department of Genetics Harvard Medical School Boston MA USA

Department of Neurobiology Harvard Medical School Boston MA USA

Department of Neuroscience Carleton University Ottawa Ontario Canada

Department of Neuroscience University of Copenhagen Copenhagen Denmark

Department of Pathology University of California San Diego CA USA

Departments of Neurosurgery and of Neurology and Epileptology Hertie Institute for Clinical Brain Research University of Tübingen Tübingen Germany

École Polytechnique Fédérale de Lausanne Lausanne Switzerland

European Molecular Biology Laboratory Hamburg Germany

European Molecular Biology Laboratory Heidelberg Germany

Friedrich Miescher Institute for Biological Research Basel Switzerland

George Mason University Fairfax VA USA

Harvard Medical School Cambridge MA USA

Harvard University Cambridge MA USA

Institute for Neuroanatomy University of Göttingen Göttingen Germany

J Craig Venter Institute La Jolla CA USA

Karolinska Institutet Stockholm Sweden

King's College London London UK

Krembil Research Institute Toronto Ontario Canada

Leiden University Medical Center Leiden the Netherlands

Macquarie University Sydney New South Wales Australia

Max Planck Institute for Biological Cybernetics Tübingen Germany

Max Planck Institute for Brain Research Frankfurt Germany

MSH Medical School Hamburg Germany

Research Centre for Natural Sciences Budapest Hungary

Research Centre Jülich Jülich Germany

Robarts Research Institute Western University London Ontario Canada

Ruhr University Bochum Bochum Germany

RWTH Aachen University Aachen Germany

Schulich School of Medicine and Dentistry Departments of Physiology Pharmacology and Psychiatry University of Western Ontario London Ontario Canada

Science for Life Laboratory Department of Biochemistry and Biophysics Stockholm University Solna Sweden

Scuola Normale Superior Pisa Italy

Sorbonne University Paris France

Stanford University Stanford CA USA

The University of Edinburgh Edinburgh UK

Univeristy of Rochester Rochester NY USA

Universidad Politécnica de Madrid Madrid Spain

University of Copenhagen Copenhagen Denmark

University of Haifa Haifa Israel

University of Oxford Oxford UK

University of Strathclyde Glasgow UK

University of Szeged Szeged Hungary

Vanderbilt University Nashville TN USA

Vrije Universiteit Amsterdam Amsterdam Netherlands

WM Keck Center for Collaborative Neuroscience Department of Cell Biology and Neuroscience Rutgers University New Brunswick Piscataway NJ USA

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700 1_: $a Aalling, Nadia $u University of Copenhagen, Copenhagen, Denmark

700 1_: $a Aguilar-Valles, Argel $u Department of Neuroscience, Carleton University, Ottawa, Ontario, Canada

700 1_: $a Arendt, Detlev $u European Molecular Biology Laboratory, Heidelberg, Germany

700 1_: $a Armañanzas, Ruben $u George Mason University, Fairfax, VA, USA $u BrainScope Company Inc., Bethesda, MD, USA

700 1_: $a Ascoli, Giorgio A $u George Mason University, Fairfax, VA, USA

700 1_: $a Bielza, Concha $u Universidad Politécnica de Madrid, Madrid, Spain

700 1_: $a Bokharaie, Vahid $u Max Planck Institute for Biological Cybernetics, Tübingen, Germany

700 1_: $a Bergmann, Tobias Borgtoft $u University of Copenhagen, Copenhagen, Denmark

700 1_: $a Bystron, Irina $u University of Oxford, Oxford, UK

700 1_: $a Capogna, Marco $u Department of Biomedicine, Aarhus University, Aarhus, Denmark

700 1_: $a Chang, YoonJeung $u Department of Genetics, Harvard Medical School, Boston, MA, USA

700 1_: $a Clemens, Ann $u The University of Edinburgh, Edinburgh, UK

700 1_: $a de Kock, Christiaan P J $u Vrije Universiteit Amsterdam, Amsterdam, Netherlands

700 1_: $a DeFelipe, Javier $u Cajal Institute, Madrid, Spain

700 1_: $a Dos Santos, Sandra Esmeralda $u Vanderbilt University, Nashville, TN, USA

700 1_: $a Dunville, Keagan $u Scuola Normale Superior, Pisa, Italy

700 1_: $a Feldmeyer, Dirk $u Research Centre Jülich, Jülich, Germany

700 1_: $a Fiáth, Richárd $u Research Centre for Natural Sciences, Budapest, Hungary

700 1_: $a Fishell, Gordon James $u Harvard Medical School, Cambridge, MA, USA

700 1_: $a Foggetti, Angelica $u Christian-Albrechts-University Kiel, Kiel, Germany

700 1_: $a Gao, Xuefan $u European Molecular Biology Laboratory, Hamburg, Germany

700 1_: $a Ghaderi, Parviz $u École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland

700 1_: $a Goriounova, Natalia A $u Vrije Universiteit Amsterdam, Amsterdam, Netherlands

700 1_: $a Güntürkün, Onur $u Ruhr University Bochum, Bochum, Germany

700 1_: $a Hagihara, Kenta $u Friedrich Miescher Institute for Biological Research, Basel, Switzerland

700 1_: $a Hall, Vanessa Jane $u University of Copenhagen, Copenhagen, Denmark

700 1_: $a Helmstaedter, Moritz $u Max Planck Institute for Brain Research, Frankfurt, Germany

700 1_: $a Herculano-Houzel, Suzana $u Vanderbilt University, Nashville, TN, USA

700 1_: $a Hilscher, Markus M $u Karolinska Institutet, Stockholm, Sweden $u Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Solna, Sweden

700 1_: $a Hirase, Hajime $u University of Copenhagen, Copenhagen, Denmark

700 1_: $a Hjerling-Leffler, Jens $u Karolinska Institutet, Stockholm, Sweden

700 1_: $a Hodge, Rebecca $u Allen Institute for Brain Science, Seattle, WA, USA

700 1_: $a Huang, Josh $u Cold Spring Harbor Laboratory, Laurel Hollow, NY, USA

700 1_: $a Huda, Rafiq $u WM Keck Center for Collaborative Neuroscience, Department of Cell Biology and Neuroscience, Rutgers University - New Brunswick, Piscataway, NJ, USA

700 1_: $a Khodosevich, Konstantin $u University of Copenhagen, Copenhagen, Denmark

700 1_: $a Kiehn, Ole $u Department of Neuroscience, University of Copenhagen, Copenhagen, Denmark

700 1_: $a Koch, Henner $u RWTH Aachen University, Aachen, Germany

700 1_: $a Kuebler, Eric S $u Robarts Research Institute, Western University, London, Ontario, Canada

700 1_: $a Kühnemund, Malte $u CARTANA, Stockholm, Sweden

700 1_: $a Larrañaga, Pedro $u Universidad Politécnica de Madrid, Madrid, Spain

700 1_: $a Lelieveldt, Boudewijn $u Leiden University Medical Center, Leiden, the Netherlands

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700 1_: $a Mansvelder, Huibert D $u Vrije Universiteit Amsterdam, Amsterdam, Netherlands

700 1_: $a Marin, Oscar $u King's College London, London, UK

700 1_: $a Martinez-Trujillo, Julio $u Schulich School of Medicine and Dentistry, Departments of Physiology, Pharmacology and Psychiatry, University of Western Ontario, London, Ontario, Canada

700 1_: $a Chameh, Homeira Moradi $u Krembil Research Institute, Toronto, Ontario, Canada

700 1_: $a Mohapatra, Alok Nath $u University of Haifa, Haifa, Israel

700 1_: $a Munguba, Hermany $u Karolinska Institutet, Stockholm, Sweden

700 1_: $a Nedergaard, Maiken $u Univeristy of Rochester, Rochester, NY, USA

700 1_: $a Němec, Pavel $u Charles University, Prague, Czech Republic

700 1_: $a Ofer, Netanel $u Bar Ilan University, Ramat Gan, Israel

700 1_: $a Pfisterer, Ulrich Gottfried $u University of Copenhagen, Copenhagen, Denmark

700 1_: $a Pontes, Samuel $u Columbia University, New York City, NY, USA

700 1_: $a Redmond, William $u Macquarie University, Sydney, New South Wales, Australia

700 1_: $a Rossier, Jean $u Sorbonne University, Paris, France

700 1_: $a Sanes, Joshua R $u Harvard University, Cambridge, MA, USA

700 1_: $a Scheuermann, Richard H $u J. Craig Venter Institute, La Jolla, CA, USA $u Department of Pathology, University of California, San Diego, CA, USA

700 1_: $a Serrano-Saiz, Esther $u Centro de Biologia Molecular Severo Ochoa (CSIC), Madrid, Spain

700 1_: $a Staiger, Jochen F $u Institute for Neuroanatomy, University of Göttingen, Göttingen, Germany

700 1_: $a Somogyi, Peter $u University of Oxford, Oxford, UK

700 1_: $a Tamás, Gábor $u University of Szeged, Szeged, Hungary

700 1_: $a Tolias, Andreas Savas $u Baylor College of Medicine, Houston, TX, USA

700 1_: $a Tosches, Maria Antonietta $u Columbia University, New York City, NY, USA

700 1_: $a García, Miguel Turrero $u Department of Neurobiology, Harvard Medical School, Boston, MA, USA

700 1_: $a Wozny, Christian $u University of Strathclyde, Glasgow, UK $u MSH Medical School, Hamburg, Germany

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