ArticleNature neuroscience2025
The synaptic architecture of layer 5 thick tufted excitatory neurons in mouse visual cortex.
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Article in Nature neuroscience, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed.
- The deficiency of KIF2C leads to abnormal distribution of cortical neurons and behavioral deficits in mice.iScience · 2026Article
- Synaptic Development of Fine Spatial Scale Organization of Neuronal Orientation Tuning in Mouse Primary Visual Cortex.bioRxiv : the preprint server for biology · 2026Article
- Dynamic relationship and pleiotropic loci of attention deficit hyperactivity disorder with sleep traits.Translational psychiatry · 2026Article
- DRIFT-EM enables direct wafer retrieval of ultrathin serial sections for large-volume electron microscopy.Cell reports methods · 2026Article
- Cell-type-specific parallel pathways in the canonical cortical microcircuit.bioRxiv : the preprint server for biology · 2026Article
- Deep-learning-assisted simulation of a cortical circuit: integrating anatomy, physiology and function.bioRxiv : the preprint server for biology · 2026Article
- Connectome-seq: high-throughput mapping of neuronal connectivity at single-synapse resolution via barcode sequencing.Nature methods · 2026Article
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- Back to the future: improving storage of Golgi-stained mouse brain.European journal of histochemistry : EJH · 2026Article
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- Biologically grounded neocortex computational primitives implemented on neuromorphic hardware improve vision transformer performance.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Ultrastructural membrane dynamics of mouse and human cortical synapses.bioRxiv : the preprint server for biology · 2025Article
- Afferent-specific modulation of excitatory synaptic transmission by acetylcholine and serotonin in the prelimbic cortex.bioRxiv : the preprint server for biology · 2025Article
- Connectome-seq: High-throughput Mapping of Neuronal Connectivity at Single-Synapse Resolution via Barcode Sequencing.bioRxiv : the preprint server for biology · 2025Article
- Article
- Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex.bioRxiv : the preprint server for biology · 2024Article
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Authors and funding
52 authors.
Agnes L BodorAllen Institute for Brain Science, Seattle, WA, USA. agnesb@alleninstitute.org.ORCID http://orcid.org/0009-0000-8401-0756
Casey M Schneider-MizellAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-9477-3853
Chi ZhangAllen Institute for Brain Science, Seattle, WA, USA.
Leila ElabbadyAllen Institute for Brain Science, Seattle, WA, USA.
Alex MallenAllen Institute for Brain Science, Seattle, WA, USA.
Andi BergesonAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0009-0008-8128-6974
Derrick BrittainAllen Institute for Brain Science, Seattle, WA, USA.
JoAnn BuchananAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-4212-5560
Daniel J BumbargerAllen Institute for Brain Science, Seattle, WA, USA.
Rachel DalleyAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-7461-7845
Clare GamlinAllen Institute for Brain Science, Seattle, WA, USA.
Emily JoyceAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-5794-6321
Daniel KapnerAllen Institute for Brain Science, Seattle, WA, USA.
Sam KinnAllen Institute for Brain Science, Seattle, WA, USA.
Gayathri MahalingamAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0003-3718-5013
Sharmishtaa SeshamaniAllen Institute for Brain Science, Seattle, WA, USA.
Shelby SuckowAllen Institute for Brain Science, Seattle, WA, USA.
Marc TakenoAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-8384-7500
Russel TorresAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-2876-4382
Wenjing YinAllen Institute for Brain Science, Seattle, WA, USA.
J Alexander BaeElectrical and Computer Engineering Department, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0002-4681-6342
Manuel A CastroPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Sven DorkenwaldPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Akhilesh HalageriPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Zhen JiaPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Chris JordanPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Nico KemnitzPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0002-0260-4532
Kisuk LeePrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Kai LiComputer Science Department, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0002-2095-7024
Ran LuPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Thomas MacrinaPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Eric MitchellPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0002-7487-1744
Shanka Subhra MondalElectrical and Computer Engineering Department, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0003-1252-0129
Shang MuPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Barak NehoranPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0001-7371-0829
Sergiy PopovychPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
William SilversmithComputer Science Department, Princeton University, Princeton, NJ, USA.
Nicholas L TurnerPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Szi-Chieh YuPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0009-0001-9684-0156
William WongPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Jingpeng WuPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Brendan CeliiDepartment of Neuroscience, Baylor College of Medicine, Houston, TX, USA.
Luke CampagnolaAllen Institute for Brain Science, Seattle, WA, USA.
Stephanie C SeemanAllen Institute for Brain Science, Seattle, WA, USA.
Tim JarskyAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-4399-539X
Naixin RenAllen Institute, Seattle, WA, USA.
Anton ArkhipovAllen Institute, Seattle, WA, USA.
Jacob ReimerDepartment of Neuroscience, Baylor College of Medicine, Houston, TX, USA.ORCID http://orcid.org/0000-0003-4364-8846
H Sebastian SeungPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.ORCID http://orcid.org/0000-0002-8591-6733
R Clay ReidAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-8697-6797
Forrest CollmanAllen Institute for Brain Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-0280-7022
Nuno Maçarico da CostaAllen Institute for Brain Science, Seattle, WA, USA. nunod@alleninstitute.org.ORCID http://orcid.org/0000-0003-2001-4568
Funding
Subcortical Neural Coding and DynamicsU19NS104648 · NINDS · PRINCETON UNIVERSITY · PI PILLOW, JONATHAN WILLIAM · 2017 to 2021
$15.3MBridging Function, Connectivity, and Transcriptomics of Mouse Cortical NeuronsU01MH130907 · NIMH · ALLEN INSTITUTE · PI ANTON ARKHIPOV, MARINA E. GARRETT · 2022 to 2026
$12.5MCollaboratory for atlasing cell type anatomy in the female and male mouse brainU01MH114824 · NIMH · COLD SPRING HARBOR LABORATORY · PI MITRA, PARTHA PRATIM · 2017 to 2021
$11.7MTowards integrated 3D reconstruction of whole human brains at subcellular resolutionU01MH117072 · NIMH · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI CHUNG, KWANGHUN · 2018 to 2022
$8.8MCircuit Mechanisms Underlying Persistent Activity in a Neural IntegratorR01EY027036 · NEI · WEILL MEDICAL COLL OF CORNELL UNIV · PI Emre R Aksay, MARK S GOLDMAN · 2016 to 2026
$6.4MStructure and Function of a Cubic Millimeter of Cortex: Crowdsourcing for Proofreading and DiscoveryRF1MH123400 · NIMH · PRINCETON UNIVERSITY · PI SEUNG, HYUNJUNE SEBASTIAN · 2020 to 2020
$6.4MScalable integration of cell types and connectivity in the motor cortex of rodents and non-human primatesRF1MH128840 · NIMH · ALLEN INSTITUTE · PI COLLMAN, FORREST CHRISTIE, MACARICO DA COSTA, NUNO · 2021 to 2021
$4.2MCell Type and Circuit Mechanisms of Non-Invasive Brain Stimulation by Sensory EntrainmentR01NS122742 · NINDS · ALLEN INSTITUTE · PI ANTON ARKHIPOV, Li-Huei Tsai · 2021 to 2026
$4.1MCircuit Mechanisms Underlying Learned Changes in Persistent Neural ActivityR01NS104926 · NINDS · WEILL MEDICAL COLL OF CORNELL UNIV · PI AKSAY, EMRE R, GOLDMAN, MARK S · 2018 to 2022
$4.1MAdvancing Bio-Realistic Modeling via the Brain Modeling ToolKit and SONATA Data FormatU24NS124001 · NINDS · ALLEN INSTITUTE · PI ANTON ARKHIPOV, Emad Tajkhorshid · 2021 to 2026
$3.4MCrowdsourcing the Fly ConnectomeRF1MH117815 · NIMH · PRINCETON UNIVERSITY · PI MURTHY, MALA, SEUNG, HYUNJUNE SEBASTIAN · 2018 to 2018
$3.3MModeling the structure-function relation in a reconstructed cortical tissueR01EB029813 · NIBIB · ALLEN INSTITUTE · PI ARKHIPOV, ANTON, MIHALAS, STEFAN · 2020 to 2020
$1.3MNEI NIH HHS R01 EY027036NIBIB NIH HHS R01 EB029813NIMH NIH HHS RF1 MH117815NIMH NIH HHS RF1 MH123400NIMH NIH HHS RF1 MH128840NIMH NIH HHS U01 MH114824NIMH NIH HHS U01 MH117072NIMH NIH HHS U01 MH130907NINDS NIH HHS R01 NS104926NINDS NIH HHS R01 NS122742NINDS NIH HHS U19 NS104648NINDS NIH HHS U24 NS124001
Abstract
Despite significant progress in characterizing neocortical cell types, a complete understanding of the synaptic connections of individual excitatory cells remains elusive. This study investigates the connectivity of mouse visual cortex thick tufted layer 5 pyramidal cells, also known as extratelencephalic neurons (L5-ETns), using a 1 mm
Indexed as
NeuronsPyramidal CellsSynapsesVisual CortexAnimalsMaleMice
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