FlyWire: online community for whole-brain connectomics

Sven Dorkenwald; Claire E. 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; Kai Kuehner; Amy R. Sterling; 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; Doug Bland; Jay Gager; James Hebditch; Selden Koolman; Merlin Moore; Sarah Morejohn; Ben Silverman; Kyle Willie; Ryan Willie; Szi chieh Yu; Mala Murthy; H. Sebastian Seung

doi:10.1038/s41592-021-01330-0

FlyWire: online community for whole-brain connectomics

Sven Dorkenwald, Claire E. 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, Kai Kuehner, Amy R. Sterling, Zoe AshwoodJonathan Zung, Derrick Brittain, Forrest Collman, Casey Schneider-Mizell, Chris Jordan, William Silversmith, Christa Baker, David Deutsch, Lucas Encarnacion-Rivera, Sandeep Kumar, Austin Burke, Doug Bland, Jay Gager, James Hebditch, Selden Koolman, Merlin Moore, Sarah Morejohn, Ben Silverman, Kyle Willie, Ryan Willie, Szi chieh Yu, Mala Murthy, H. Sebastian Seung

Research output: Contribution to journal › Article › peer-review

78 Scopus citations

Abstract

Due to advances in automated image acquisition and analysis, whole-brain connectomes with 100,000 or more neurons are 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 Drosophila melanogaster brain and explain how its computational and social structures are organized to scale up to whole-brain connectomics. Browser-based three-dimensional 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 analyzing the connectome of mechanosensory neurons.

Original language	English (US)
Pages (from-to)	119-128
Number of pages	10
Journal	Nature Methods
Volume	19
Issue number	1
DOIs	https://doi.org/10.1038/s41592-021-01330-0
State	Published - Jan 2022

All Science Journal Classification (ASJC) codes

Biotechnology
Biochemistry
Molecular Biology
Cell Biology

Access to Document

10.1038/s41592-021-01330-0

Cite this

Dorkenwald, S., McKellar, C. E., Macrina, T., Kemnitz, N., Lee, K., Lu, R., Wu, J., Popovych, S., Mitchell, E., Nehoran, B., Jia, Z., Bae, J. A., Mu, S., Ih, D., Castro, M., Ogedengbe, O., Halageri, A., Kuehner, K., Sterling, A. R., ... Seung, H. S. (2022). FlyWire: online community for whole-brain connectomics. Nature Methods, 19(1), 119-128. https://doi.org/10.1038/s41592-021-01330-0

@article{66be3c9738ce484e80bf61a007d4dc4a,

title = "FlyWire: online community for whole-brain connectomics",

abstract = "Due to advances in automated image acquisition and analysis, whole-brain connectomes with 100,000 or more neurons are 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 Drosophila melanogaster brain and explain how its computational and social structures are organized to scale up to whole-brain connectomics. Browser-based three-dimensional 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 analyzing the connectome of mechanosensory neurons.",

author = "Sven Dorkenwald and McKellar, {Claire E.} and Thomas Macrina and Nico Kemnitz and Kisuk Lee and Ran Lu and Jingpeng Wu and Sergiy Popovych and Eric Mitchell and Barak Nehoran and Zhen Jia and Bae, {J. Alexander} and Shang Mu and Dodam Ih and Manuel Castro and Oluwaseun Ogedengbe and Akhilesh Halageri and Kai Kuehner and Sterling, {Amy R.} and Zoe Ashwood and Jonathan Zung and Derrick Brittain and Forrest Collman and Casey Schneider-Mizell and Chris Jordan and William Silversmith and Christa Baker and David Deutsch and Lucas Encarnacion-Rivera and Sandeep Kumar and Austin Burke and Doug Bland and Jay Gager and James Hebditch and Selden Koolman and Merlin Moore and Sarah Morejohn and Ben Silverman and Kyle Willie and Ryan Willie and Yu, {Szi chieh} and Mala Murthy and Seung, {H. Sebastian}",

note = "Publisher Copyright: {\textcopyright} 2021, The Author(s), under exclusive licence to Springer Nature America, Inc.",

year = "2022",

month = jan,

doi = "10.1038/s41592-021-01330-0",

language = "English (US)",

volume = "19",

pages = "119--128",

journal = "Nature Methods",

issn = "1548-7091",

publisher = "Nature Research",

number = "1",

}

Dorkenwald, S, McKellar, CE, Macrina, T, Kemnitz, N, Lee, K, Lu, R, Wu, J, Popovych, S, Mitchell, E, Nehoran, B, Jia, Z, Bae, JA, Mu, S, Ih, D, Castro, M, Ogedengbe, O, Halageri, A, Kuehner, K, Sterling, AR, Ashwood, Z, Zung, J, Brittain, D, Collman, F, Schneider-Mizell, C, Jordan, C, Silversmith, W, Baker, C, Deutsch, D, Encarnacion-Rivera, L, Kumar, S, Burke, A, Bland, D, Gager, J, Hebditch, J, Koolman, S, Moore, M, Morejohn, S, Silverman, B, Willie, K, Willie, R, Yu, SC, Murthy, M & Seung, HS 2022, 'FlyWire: online community for whole-brain connectomics', Nature Methods, vol. 19, no. 1, pp. 119-128. https://doi.org/10.1038/s41592-021-01330-0

TY - JOUR

T1 - FlyWire

T2 - online community for whole-brain connectomics

AU - Dorkenwald, Sven

AU - McKellar, Claire E.

AU - Macrina, Thomas

AU - Kemnitz, Nico

AU - Lee, Kisuk

AU - Lu, Ran

AU - Wu, Jingpeng

AU - Popovych, Sergiy

AU - Mitchell, Eric

AU - Nehoran, Barak

AU - Jia, Zhen

AU - Bae, J. Alexander

AU - Mu, Shang

AU - Ih, Dodam

AU - Castro, Manuel

AU - Ogedengbe, Oluwaseun

AU - Halageri, Akhilesh

AU - Kuehner, Kai

AU - Sterling, Amy R.

AU - Ashwood, Zoe

AU - Zung, Jonathan

AU - Brittain, Derrick

AU - Collman, Forrest

AU - Schneider-Mizell, Casey

AU - Jordan, Chris

AU - Silversmith, William

AU - Baker, Christa

AU - Deutsch, David

AU - Encarnacion-Rivera, Lucas

AU - Kumar, Sandeep

AU - Burke, Austin

AU - Bland, Doug

AU - Gager, Jay

AU - Hebditch, James

AU - Koolman, Selden

AU - Moore, Merlin

AU - Morejohn, Sarah

AU - Silverman, Ben

AU - Willie, Kyle

AU - Willie, Ryan

AU - Yu, Szi chieh

AU - Murthy, Mala

AU - Seung, H. Sebastian

PY - 2022/1

Y1 - 2022/1

N2 - Due to advances in automated image acquisition and analysis, whole-brain connectomes with 100,000 or more neurons are 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 Drosophila melanogaster brain and explain how its computational and social structures are organized to scale up to whole-brain connectomics. Browser-based three-dimensional 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 analyzing the connectome of mechanosensory neurons.

AB - Due to advances in automated image acquisition and analysis, whole-brain connectomes with 100,000 or more neurons are 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 Drosophila melanogaster brain and explain how its computational and social structures are organized to scale up to whole-brain connectomics. Browser-based three-dimensional 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 analyzing the connectome of mechanosensory neurons.

UR - http://www.scopus.com/inward/record.url?scp=85121587375&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85121587375&partnerID=8YFLogxK

U2 - 10.1038/s41592-021-01330-0

DO - 10.1038/s41592-021-01330-0

M3 - Article

C2 - 34949809

AN - SCOPUS:85121587375

SN - 1548-7091

VL - 19

SP - 119

EP - 128

JO - Nature Methods

JF - Nature Methods

IS - 1

ER -

FlyWire: online community for whole-brain connectomics

Abstract

All Science Journal Classification (ASJC) codes

Access to Document

Other files and links

Fingerprint

Cite this