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FlyWire: Online community for whole-brain connectomics

View ORCID ProfileSven Dorkenwald, View ORCID ProfileClaire McKellar, View ORCID ProfileThomas Macrina, View ORCID ProfileNico Kemnitz, Kisuk Lee, Ran Lu, View ORCID ProfileJingpeng Wu, Sergiy Popovych, Eric Mitchell, Barak Nehoran, Zhen Jia, View ORCID ProfileJ. Alexander Bae, Shang Mu, Dodam Ih, Manuel Castro, Oluwaseun Ogedengbe, Akhilesh Halageri, Zoe Ashwood, Jonathan Zung, View ORCID ProfileDerrick Brittain, View ORCID ProfileForrest Collman, View ORCID ProfileCasey Schneider-Mizell, Chris Jordan, View ORCID ProfileWilliam Silversmith, Christa Baker, View ORCID ProfileDavid Deutsch, Lucas Encarnacion-Rivera, Sandeep Kumar, View ORCID ProfileAustin Burke, Jay Gager, James Hebditch, Selden Koolman, Merlin Moore, Sarah Morejohn, Ben Silverman, Kyle Willie, Ryan Willie, Szi-chieh Yu, View ORCID ProfileMala Murthy, View ORCID ProfileH. Sebastian Seung
doi: https://doi.org/10.1101/2020.08.30.274225
Sven Dorkenwald
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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Claire McKellar
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Thomas Macrina
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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Nico Kemnitz
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Kisuk Lee
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
5Brain & Cognitive Sciences Department, Massachusetts Institute of Technology, Cambridge, MA, USA
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Ran Lu
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Jingpeng Wu
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Sergiy Popovych
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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Eric Mitchell
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Barak Nehoran
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Zhen Jia
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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J. Alexander Bae
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
3Electrical Engineering Department, Princeton University, Princeton, NJ, USA
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Shang Mu
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Dodam Ih
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Manuel Castro
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Oluwaseun Ogedengbe
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Akhilesh Halageri
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Zoe Ashwood
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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Jonathan Zung
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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Derrick Brittain
4Allen Institute for Brain Science, Seattle, WA, USA
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Forrest Collman
4Allen Institute for Brain Science, Seattle, WA, USA
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Casey Schneider-Mizell
4Allen Institute for Brain Science, Seattle, WA, USA
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Chris Jordan
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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William Silversmith
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Christa Baker
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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David Deutsch
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Lucas Encarnacion-Rivera
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Sandeep Kumar
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Austin Burke
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Jay Gager
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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James Hebditch
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Selden Koolman
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Merlin Moore
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Sarah Morejohn
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Ben Silverman
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Kyle Willie
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Ryan Willie
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Szi-chieh Yu
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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Mala Murthy
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
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  • For correspondence: sseung@princeton.edu mmurthy@princeton.edu
H. Sebastian Seung
1Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA
2Computer Science Department, Princeton University, Princeton, NJ, USA
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  • For correspondence: sseung@princeton.edu mmurthy@princeton.edu
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ABSTRACT

Due to advances in automated image acquisition and analysis, new whole-brain connectomes beyond C. elegans are finally on the horizon. Proofreading of whole-brain automated reconstructions will require many person-years of effort, due to the huge volumes of data involved. Here we present FlyWire, an online community for proofreading neural circuits in a fly brain, and explain how its computational and social structures are organized to scale up to whole-brain connectomics. Browser-based 3D interactive segmentation by collaborative editing of a spatially chunked supervoxel graph makes it possible to distribute proofreading to individuals located virtually anywhere in the world. Information in the edit history is programmatically accessible for a variety of uses such as estimating proofreading accuracy or building incentive systems. An open community accelerates proofreading by recruiting more participants, and accelerates scientific discovery by requiring information sharing. We demonstrate how FlyWire enables circuit analysis by reconstructing and analysing the connectome of mechanosensory neurons.

Competing Interest Statement

TM and HSS disclose financial interests in Zetta AI LLC.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-ND 4.0 International license.
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Posted August 30, 2020.
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FlyWire: Online community for whole-brain connectomics
Sven Dorkenwald, Claire McKellar, Thomas Macrina, Nico Kemnitz, Kisuk Lee, Ran Lu, Jingpeng Wu, Sergiy Popovych, Eric Mitchell, Barak Nehoran, Zhen Jia, J. Alexander Bae, Shang Mu, Dodam Ih, Manuel Castro, Oluwaseun Ogedengbe, Akhilesh Halageri, Zoe Ashwood, Jonathan Zung, Derrick Brittain, Forrest Collman, Casey Schneider-Mizell, Chris Jordan, William Silversmith, Christa Baker, David Deutsch, Lucas Encarnacion-Rivera, Sandeep Kumar, Austin Burke, Jay Gager, James Hebditch, Selden Koolman, Merlin Moore, Sarah Morejohn, Ben Silverman, Kyle Willie, Ryan Willie, Szi-chieh Yu, Mala Murthy, H. Sebastian Seung
bioRxiv 2020.08.30.274225; doi: https://doi.org/10.1101/2020.08.30.274225
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FlyWire: Online community for whole-brain connectomics
Sven Dorkenwald, Claire McKellar, Thomas Macrina, Nico Kemnitz, Kisuk Lee, Ran Lu, Jingpeng Wu, Sergiy Popovych, Eric Mitchell, Barak Nehoran, Zhen Jia, J. Alexander Bae, Shang Mu, Dodam Ih, Manuel Castro, Oluwaseun Ogedengbe, Akhilesh Halageri, Zoe Ashwood, Jonathan Zung, Derrick Brittain, Forrest Collman, Casey Schneider-Mizell, Chris Jordan, William Silversmith, Christa Baker, David Deutsch, Lucas Encarnacion-Rivera, Sandeep Kumar, Austin Burke, Jay Gager, James Hebditch, Selden Koolman, Merlin Moore, Sarah Morejohn, Ben Silverman, Kyle Willie, Ryan Willie, Szi-chieh Yu, Mala Murthy, H. Sebastian Seung
bioRxiv 2020.08.30.274225; doi: https://doi.org/10.1101/2020.08.30.274225

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