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Classification of electrophysiological and morphological types in mouse visual cortex

View ORCID ProfileNathan W. Gouwens, View ORCID ProfileStaci A. Sorensen, Jim Berg, Changkyu Lee, View ORCID ProfileTim Jarsky, Jonathan Ting, Susan M. Sunkin, View ORCID ProfileDavid Feng, View ORCID ProfileCostas Anastassiou, View ORCID ProfileEliza Barkan, Kris Bickley, Nicole Blesie, Thomas Braun, Krissy Brouner, View ORCID ProfileAgata Budzillo, Shiella Caldejon, Tamara Casper, Dan Casteli, Peter Chong, Kirsten Crichton, Christine Cuhaciyan, View ORCID ProfileL. Daigle Tanya, Rachel Dalley, Nick Dee, View ORCID ProfileTsega Desta, Samuel Dingman, Alyse Doperalski, Nadezhda Dotson, Tom Egdorf, Michael Fisher, Rebecca A. de Frates, Emma Garren, Marissa Garwood, Amanda Gary, View ORCID ProfileNathalie Gaudreault, Keith Godfrey, View ORCID ProfileMelissa Gorham, View ORCID ProfileHong Gu, Caroline Habel, Kristen Hadley, James Harrington, Julie Harris, Alex Henry, DiJon Hill, Sam Josephsen, Sara Kebede, Lisa Kim, Matthew Kroll, Brian Lee, Tracy Lemon, Xiaoxiao Liu, Brian Long, Rusty Mann, Medea McGraw, View ORCID ProfileStefan Mihalas, Alice Mukora, View ORCID ProfileGabe J. Murphy, Lindsay Ng, Kiet Ngo, View ORCID ProfileThuc Nghi Nguyen, View ORCID ProfilePhilip R. Nicovich, Aaron Oldre, Daniel Park, Sheana Parry, Jed Perkins, Lydia Potekhina, David Reid, Miranda Robertson, David Sandman, Martin Schroedter, View ORCID ProfileCliff Slaughterbeck, View ORCID ProfileGilberto Soler-Llavina, Josef Sulc, View ORCID ProfileAaron Szafer, View ORCID ProfileBosiljka Tasic, Naz Taskin, View ORCID ProfileCorinne Teeter, Nivretta Thatra, Herman Tung, Wayne Wakeman, Grace Williams, Rob Young, Zhi Zhou, View ORCID ProfileColin Farrell, View ORCID ProfileHanchuan Peng, View ORCID ProfileMichael J. Hawrylycz, View ORCID ProfileEd Lein, View ORCID ProfileLydia Ng, Anton Arkhipov, View ORCID ProfileAmy Bernard, John W. Phillips, View ORCID ProfileHongkui Zeng, View ORCID ProfileChristof Koch
doi: https://doi.org/10.1101/368456
Nathan W. Gouwens
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Staci A. Sorensen
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Jim Berg
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Changkyu Lee
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Tim Jarsky
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Jonathan Ting
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Susan M. Sunkin
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David Feng
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Costas Anastassiou
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Eliza Barkan
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Kris Bickley
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Nicole Blesie
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Thomas Braun
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Krissy Brouner
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Agata Budzillo
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Shiella Caldejon
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Christine Cuhaciyan
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L. Daigle Tanya
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Rachel Dalley
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Nick Dee
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Tsega Desta
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Samuel Dingman
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Alyse Doperalski
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Michael Fisher
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Rebecca A. de Frates
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Philip R. Nicovich
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Hongkui Zeng
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  • For correspondence: hongkuiz@alleninstitute.org
Christof Koch
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ABSTRACT

Understanding the diversity of cell types in the brain has been an enduring challenge and requires detailed characterization of individual neurons in multiple dimensions. To profile morpho-electric properties of mammalian neurons systematically, we established a single cell characterization pipeline using standardized patch clamp recordings in brain slices and biocytin-based neuronal reconstructions. We built a publicly-accessible online database, the Allen Cell Types Database, to display these data sets. Intrinsic physiological and morphological properties were measured from over 1,800 neurons from the adult laboratory mouse visual cortex. Quantitative features were used to classify neurons into distinct types using unsupervised methods. We establish a taxonomy of morphologically- and electrophysiologically-defined cell types for this region of cortex with 17 e-types and 35 m-types, as well as an initial correspondence with previously-defined transcriptomic cell types using the same transgenic mouse lines.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted July 17, 2018.
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Classification of electrophysiological and morphological types in mouse visual cortex
Nathan W. Gouwens, Staci A. Sorensen, Jim Berg, Changkyu Lee, Tim Jarsky, Jonathan Ting, Susan M. Sunkin, David Feng, Costas Anastassiou, Eliza Barkan, Kris Bickley, Nicole Blesie, Thomas Braun, Krissy Brouner, Agata Budzillo, Shiella Caldejon, Tamara Casper, Dan Casteli, Peter Chong, Kirsten Crichton, Christine Cuhaciyan, L. Daigle Tanya, Rachel Dalley, Nick Dee, Tsega Desta, Samuel Dingman, Alyse Doperalski, Nadezhda Dotson, Tom Egdorf, Michael Fisher, Rebecca A. de Frates, Emma Garren, Marissa Garwood, Amanda Gary, Nathalie Gaudreault, Keith Godfrey, Melissa Gorham, Hong Gu, Caroline Habel, Kristen Hadley, James Harrington, Julie Harris, Alex Henry, DiJon Hill, Sam Josephsen, Sara Kebede, Lisa Kim, Matthew Kroll, Brian Lee, Tracy Lemon, Xiaoxiao Liu, Brian Long, Rusty Mann, Medea McGraw, Stefan Mihalas, Alice Mukora, Gabe J. Murphy, Lindsay Ng, Kiet Ngo, Thuc Nghi Nguyen, Philip R. Nicovich, Aaron Oldre, Daniel Park, Sheana Parry, Jed Perkins, Lydia Potekhina, David Reid, Miranda Robertson, David Sandman, Martin Schroedter, Cliff Slaughterbeck, Gilberto Soler-Llavina, Josef Sulc, Aaron Szafer, Bosiljka Tasic, Naz Taskin, Corinne Teeter, Nivretta Thatra, Herman Tung, Wayne Wakeman, Grace Williams, Rob Young, Zhi Zhou, Colin Farrell, Hanchuan Peng, Michael J. Hawrylycz, Ed Lein, Lydia Ng, Anton Arkhipov, Amy Bernard, John W. Phillips, Hongkui Zeng, Christof Koch
bioRxiv 368456; doi: https://doi.org/10.1101/368456
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Classification of electrophysiological and morphological types in mouse visual cortex
Nathan W. Gouwens, Staci A. Sorensen, Jim Berg, Changkyu Lee, Tim Jarsky, Jonathan Ting, Susan M. Sunkin, David Feng, Costas Anastassiou, Eliza Barkan, Kris Bickley, Nicole Blesie, Thomas Braun, Krissy Brouner, Agata Budzillo, Shiella Caldejon, Tamara Casper, Dan Casteli, Peter Chong, Kirsten Crichton, Christine Cuhaciyan, L. Daigle Tanya, Rachel Dalley, Nick Dee, Tsega Desta, Samuel Dingman, Alyse Doperalski, Nadezhda Dotson, Tom Egdorf, Michael Fisher, Rebecca A. de Frates, Emma Garren, Marissa Garwood, Amanda Gary, Nathalie Gaudreault, Keith Godfrey, Melissa Gorham, Hong Gu, Caroline Habel, Kristen Hadley, James Harrington, Julie Harris, Alex Henry, DiJon Hill, Sam Josephsen, Sara Kebede, Lisa Kim, Matthew Kroll, Brian Lee, Tracy Lemon, Xiaoxiao Liu, Brian Long, Rusty Mann, Medea McGraw, Stefan Mihalas, Alice Mukora, Gabe J. Murphy, Lindsay Ng, Kiet Ngo, Thuc Nghi Nguyen, Philip R. Nicovich, Aaron Oldre, Daniel Park, Sheana Parry, Jed Perkins, Lydia Potekhina, David Reid, Miranda Robertson, David Sandman, Martin Schroedter, Cliff Slaughterbeck, Gilberto Soler-Llavina, Josef Sulc, Aaron Szafer, Bosiljka Tasic, Naz Taskin, Corinne Teeter, Nivretta Thatra, Herman Tung, Wayne Wakeman, Grace Williams, Rob Young, Zhi Zhou, Colin Farrell, Hanchuan Peng, Michael J. Hawrylycz, Ed Lein, Lydia Ng, Anton Arkhipov, Amy Bernard, John W. Phillips, Hongkui Zeng, Christof Koch
bioRxiv 368456; doi: https://doi.org/10.1101/368456

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