A mesoscale connectome of the mouse brain

Seung Wook Oh, Julie A. Harris, Lydia Ng, Brent Winslow, Nicholas Cain, Stefan Mihalas, Quanxin Wang, Chris Lau, Leonard Kuan, Alex M. Henry, Marty T. Mortrud, Benjamin Ouellette, Thuc Nghi Nguyen, Staci A. Sorensen, Clifford R. Slaughterbeck, Wayne Wakeman, Yang Li, David Feng, Anh Ho, Eric Nicholas, Karla E. Hirokawa, Phillip Bohn, Kevin M. Joines, Hanchuan Peng, Michael J. Hawrylycz, John W. Phillips, John G. Hohmann, Paul Wohnoutka, Charles R. Gerfen, Christof Koch, Amy Bernard, Chinh Dang, Allan R. Jones and Hongkui Zeng ()
Additional contact information
Seung Wook Oh: Allen Institute for Brain Science
Julie A. Harris: Allen Institute for Brain Science
Lydia Ng: Allen Institute for Brain Science
Brent Winslow: Allen Institute for Brain Science
Nicholas Cain: Allen Institute for Brain Science
Stefan Mihalas: Allen Institute for Brain Science
Quanxin Wang: Allen Institute for Brain Science
Chris Lau: Allen Institute for Brain Science
Leonard Kuan: Allen Institute for Brain Science
Alex M. Henry: Allen Institute for Brain Science
Marty T. Mortrud: Allen Institute for Brain Science
Benjamin Ouellette: Allen Institute for Brain Science
Thuc Nghi Nguyen: Allen Institute for Brain Science
Staci A. Sorensen: Allen Institute for Brain Science
Clifford R. Slaughterbeck: Allen Institute for Brain Science
Wayne Wakeman: Allen Institute for Brain Science
Yang Li: Allen Institute for Brain Science
David Feng: Allen Institute for Brain Science
Anh Ho: Allen Institute for Brain Science
Eric Nicholas: Allen Institute for Brain Science
Karla E. Hirokawa: Allen Institute for Brain Science
Phillip Bohn: Allen Institute for Brain Science
Kevin M. Joines: Allen Institute for Brain Science
Hanchuan Peng: Allen Institute for Brain Science
Michael J. Hawrylycz: Allen Institute for Brain Science
John W. Phillips: Allen Institute for Brain Science
John G. Hohmann: Allen Institute for Brain Science
Paul Wohnoutka: Allen Institute for Brain Science
Charles R. Gerfen: Laboratory of Systems Neuroscience, National Institute of Mental Health
Christof Koch: Allen Institute for Brain Science
Amy Bernard: Allen Institute for Brain Science
Chinh Dang: Allen Institute for Brain Science
Allan R. Jones: Allen Institute for Brain Science
Hongkui Zeng: Allen Institute for Brain Science

Nature, 2014, vol. 508, issue 7495, 207-214

Abstract: Abstract Comprehensive knowledge of the brain’s wiring diagram is fundamental for understanding how the nervous system processes information at both local and global scales. However, with the singular exception of the C. elegans microscale connectome, there are no complete connectivity data sets in other species. Here we report a brain-wide, cellular-level, mesoscale connectome for the mouse. The Allen Mouse Brain Connectivity Atlas uses enhanced green fluorescent protein (EGFP)-expressing adeno-associated viral vectors to trace axonal projections from defined regions and cell types, and high-throughput serial two-photon tomography to image the EGFP-labelled axons throughout the brain. This systematic and standardized approach allows spatial registration of individual experiments into a common three dimensional (3D) reference space, resulting in a whole-brain connectivity matrix. A computational model yields insights into connectional strength distribution, symmetry and other network properties. Virtual tractography illustrates 3D topography among interconnected regions. Cortico-thalamic pathway analysis demonstrates segregation and integration of parallel pathways. The Allen Mouse Brain Connectivity Atlas is a freely available, foundational resource for structural and functional investigations into the neural circuits that support behavioural and cognitive processes in health and disease.

Date: 2014
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DOI: 10.1038/nature13186

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