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Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity.
Turner, Nicholas L; Macrina, Thomas; Bae, J Alexander; Yang, Runzhe; Wilson, Alyssa M; Schneider-Mizell, Casey; Lee, Kisuk; Lu, Ran; Wu, Jingpeng; Bodor, Agnes L; Bleckert, Adam A; Brittain, Derrick; Froudarakis, Emmanouil; Dorkenwald, Sven; Collman, Forrest; Kemnitz, Nico; Ih, Dodam; Silversmith, William M; Zung, Jonathan; Zlateski, Aleksandar; Tartavull, Ignacio; Yu, Szi-Chieh; Popovych, Sergiy; Mu, Shang; Wong, William; Jordan, Chris S; Castro, Manuel; Buchanan, JoAnn; Bumbarger, Daniel J; Takeno, Marc; Torres, Russel; Mahalingam, Gayathri; Elabbady, Leila; Li, Yang; Cobos, Erick; Zhou, Pengcheng; Suckow, Shelby; Becker, Lynne; Paninski, Liam; Polleux, Franck; Reimer, Jacob; Tolias, Andreas S; Reid, R Clay; da Costa, Nuno Maçarico; Seung, H Sebastian.
Affiliation
  • Turner NL; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA.
  • Macrina T; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA.
  • Bae JA; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Electrical and Computer Engineering Department, Princeton University, Princeton, NJ 08544, USA.
  • Yang R; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA.
  • Wilson AM; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Schneider-Mizell C; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Lee K; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Brain & Cognitive Sciences Department, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Lu R; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Wu J; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Bodor AL; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Bleckert AA; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Brittain D; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Froudarakis E; Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA; Center for Neuroscience and Artificial Intelligence, Baylor College of Medicine, Houston, TX 77030, USA.
  • Dorkenwald S; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA.
  • Collman F; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Kemnitz N; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Ih D; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Silversmith WM; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Zung J; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA.
  • Zlateski A; Electrical Engineering and Computer Science Department, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Tartavull I; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Yu SC; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Popovych S; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA.
  • Mu S; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Wong W; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Jordan CS; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Castro M; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
  • Buchanan J; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Bumbarger DJ; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Takeno M; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Torres R; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Mahalingam G; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Elabbady L; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Li Y; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Cobos E; Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA; Center for Neuroscience and Artificial Intelligence, Baylor College of Medicine, Houston, TX 77030, USA.
  • Zhou P; Department of Statistics, Columbia University, New York, NY 10027, USA; Center for Theoretical Neuroscience, Columbia University, New York, NY 10027, USA; Grossman Center for the Statistics of Mind, Columbia University, New York, NY 10027, USA.
  • Suckow S; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Becker L; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Paninski L; Department of Statistics, Columbia University, New York, NY 10027, USA; Center for Theoretical Neuroscience, Columbia University, New York, NY 10027, USA; Grossman Center for the Statistics of Mind, Columbia University, New York, NY 10027, USA; Zuckerman Mind Brain Behavior Institute, Columbia Unive
  • Polleux F; Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA; Department of Neuroscience, Columbia University, New York, NY 10027, USA; Kavli Institute for Brain Science at Columbia University, New York, NY 10027, USA.
  • Reimer J; Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA; Center for Neuroscience and Artificial Intelligence, Baylor College of Medicine, Houston, TX 77030, USA.
  • Tolias AS; Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA; Center for Neuroscience and Artificial Intelligence, Baylor College of Medicine, Houston, TX 77030, USA; Department of Electrical and Computer Engineering, Rice University, Houston, TX 77005, USA.
  • Reid RC; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • da Costa NM; Allen Institute for Brain Science, Seattle, WA 98109, USA.
  • Seung HS; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA; Computer Science Department, Princeton University, Princeton, NJ 08544, USA. Electronic address: sseung@princeton.edu.
Cell ; 185(6): 1082-1100.e24, 2022 03 17.
Article in En | MEDLINE | ID: mdl-35216674
ABSTRACT
We assembled a semi-automated reconstruction of L2/3 mouse primary visual cortex from ∼250 × 140 × 90 µm3 of electron microscopic images, including pyramidal and non-pyramidal neurons, astrocytes, microglia, oligodendrocytes and precursors, pericytes, vasculature, nuclei, mitochondria, and synapses. Visual responses of a subset of pyramidal cells are included. The data are publicly available, along with tools for programmatic and three-dimensional interactive access. Brief vignettes illustrate the breadth of potential applications relating structure to function in cortical circuits and neuronal cell biology. Mitochondria and synapse organization are characterized as a function of path length from the soma. Pyramidal connectivity motif frequencies are predicted accurately using a configuration model of random graphs. Pyramidal cells receiving more connections from nearby cells exhibit stronger and more reliable visual responses. Sample code shows data access and analysis.
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Full text: 1 Database: MEDLINE Main subject: Neocortex Type of study: Prognostic_studies Limits: Animals Language: En Year: 2022 Type: Article
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Full text: 1 Database: MEDLINE Main subject: Neocortex Type of study: Prognostic_studies Limits: Animals Language: En Year: 2022 Type: Article