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Human Cells imaged by the Allen Institute for Cell Science using AGAVE
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Publications

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eLife

Expansion-assisted selective plane illumination microscopy for nanoscale imaging of centimeter-scale tissues

Jun 30, 2025

Adam Glaser, Jayaram Chandrashekar, Sonya Vasquez, Cameron Arshadi, Rajvi Javeri, Naveen Ouellette, Xiaoyun Jiang, Judith Baka, Gabor Kovacs, Micah Woodard, Shamishtaa Seshamani, Kevin Cao, Nathan Clack, Andrew Recknagel, Anna Grim, Pooja Balaram, Emily Turschak, Marcus Hooper, Alan Liddell, John Rohde, Ayana Hellevik, Kevin Takasaki, Lindsey Erion Barner, Molly Logsdon, Chris Chronopoulos, Saskia EJ de Vries, Jonathan T Ting, Steven Perlmutter, Brian E Kalmbach, Nikolai Dembrow, Bosiljka Tasic, R Clay Reid, David Feng, Karel Svoboda, Melike Lakadamyali, John R Huguenard

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Preprint

Glutamate indicators with increased sensitivity and tailored deactivation rates

Mar 24, 2025

Abhi Aggarwal, Adrian Negrean, Yang Chen, Rishyashring Iyer, Daniel Reep, Anyi Liu, Anirudh Palutla, Michael E. Xie, Bryan J. MacLennan, Kenta M. Hagihara, Lucas W. Kinsey, Julianna L. Sun, Pantong Yao, Jihong Zheng, Arthur Tsang, Getahun Tsegaye, Yonghai Zhang, Ronak H. Patel, Benjamin J. Arthur, Julien Hiblot, Philipp Leippe, Miroslaw Tarnawski, Jonathan S. Marvin, Jason D. Vevea, Srinivas C. Turaga, Alison G. Tebo, Matteo Carandini, L. F. Rossi, David Kleinfeld, Arthur Konnerth, Karel Svoboda, Glenn C. Turner, Jeremy Hasseman, Kaspar Podgorski

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Preprint

Adaptation, not prediction, drives neuronal spiking responses in mammalian sensory cortex

Jan 09, 2025

Jacob A. Westerberg, Yihan S. Xiong, Hamed Nejat, Eli Sennesh, Séverine Durand, Ben Hardcastle, Hannah Cabasco, Hannah Belski, Ahad Bawany, Ryan Gillis, Henry Loeffler, Carter R. Peene, Warren Han, Katrina Nguyen, Vivian Ha, Tye Johnson, Conor Grasso, Ahrial Young, Jackie Swapp, Ben Ouellette, Shiella Caldejon, Ali Williford, Peter A. Groblewski, Shawn R. Olsen, Carly Kiselycznyk, Jerome A. Lecoq, Alexander Maier, André M. Bastos

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Neuron

SHIELD: Skull-shaped hemispheric implants enabling large-scale electrophysiology datasets in the mouse brain

Sep 04, 2024

Corbett Bennett, Ben Ouellette, Tamina K. Ramirez, Alex Cahoon, Hannah Cabasco, Yoni Browning, Anna Lakunina, Galen F. Lynch, Ethan G. McBride, Hannah Belski, Ryan Gillis, Conor Grasso, Robert Howard, Tye Johnson, Henry Loeffler, Heston Smith, David Sullivan, Allison Williford, Shiella Caldejon, Severine Durand, Samuel Gale, Alan Guthrie, Vivian Ha, Warren Han, Ben Hardcastle, Chris Mochizuki, Arjun Sridhar, Lucas Suarez, Jackie Swapp, Joshua Wilkes, Joshua H. Siegle, Colin Farrell, Peter A. Groblewski, Shawn R. Olsen

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eLife

Expansion-assisted selective plane illumination microscopy for nanoscale imaging of centimeter-scale tissues

Aug 28, 2024

Adam Glaser, Jayaram Chandrashekar, Sonya Vasquez, Cameron Arshadi, Naveen Ouellette, Xiaoyun Jiang, Judith Baka, Gabor Kovacs, Micah Woodard, Sharmishtaa Seshamani, Kevin Cao, Nathan Clack, Andrew Recknagel, Anna Grim, Pooja Balaram, Emily Turschak, Marcus Hooper, Alan Liddell, John Rohde, Ayana Hellevik, Kevin Takasaki, Lindsey Erion Barner, Molly Logsdon, Chris Chronopoulos, Saskia de Vries, Jonathan Ting, Steve Perlmutter, Brian Kalmbach, Nikolai Dembrow, Bosiljka Tasic, R. Clay Reid, David Feng, Karel Svoboda

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Preprint

Deciphering neuronal variability across states reveals dynamic sensory encoding

Apr 11, 2024

Shailaja Akella, Peter Ledochowitsch, Joshua H. Siegle, Hannah Belski, Daniel Denman, Michael A. Buice, Severine Durand, Christof Koch, Shawn R. Olsen, Xiaoxuan Jia

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Preprint

Ultra-high density electrodes improve detection, yield, and cell type identification in neuronal recordings

Apr 10, 2024

Zhiwen Ye, Andrew M. Shelton, Jordan R. Shaker, Julien Boussard, Jennifer Colonell, Daniel Birman, Sahar Manavi, Susu Chen, Charlie Windolf, Cole Hurwitz, Tomoyuki Namima, Federico Pedraja, Shahaf Weiss, Bogdan Raducanu, Torbjørn V. Ness, Xiaoxuan Jia, Giulia Mastroberardino, L. Federico Rossi, Matteo Carandini, Michael Häusser, Gaute T. Einevoll, Gilles Laurent, Nathaniel B. Sawtell, Wyeth Bair, Anitha Pasupathy, Carolina Mora Lopez, Barun Dutta, Liam Paninski, Joshua H. Siegle, Christof Koch, Shawn R. Olsen, Timothy D. Harris, Nicholas A. Steinmetz

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Neuron

Behavioral strategy shapes activation of the Vip-Sst disinhibitory circuit in visual cortex

Feb 29, 2024

Alex Piet, Nick Ponvert, Douglas Ollerenshaw, Marina Garrett, Peter A. Groblewski, Shawn Olsen, Christof Koch, Anton Arkhipov

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Preprint

Coordinated changes in a cortical circuit sculpt effects of novelty on neural dynamics

Oct 23, 2023

Shinya Ito, Alex Piet, Corbett Bennett, Séverine Durand, Hannah Belski, Marina Garrett, Shawn R. Olsen, Anton Arkhipov

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Journal of Neural Engineering

Compression strategies for large-scale electrophysiology data

Sep 18, 2023

Alessio P. Buccino, Olivier Winter, David Bryant, David Feng, Karel Svoboda, Joshua H. Siegle

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eNeuro

Saccade-Responsive Visual Cortical Neurons Do Not Exhibit Distinct Visual Response Properties

Sep 01, 2023

Chase W. King, Peter Ledochowitsch, Michael A. Buice, Saskia E. J. de Vries

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Preprint

Recurrent pattern completion drives the neocortical representation of sensory inference

Jun 07, 2023

Hyeyoung Shin, Mora B. Ogando, Lamiae Abdeladim, Severine Durand, Hannah Belski, Hannah Cabasco, Henry Loefler, Ahad Bawany, Ben Hardcastle, Josh Wilkes, Katrina Nguyen, Lucas Suarez, Tye Johnson, Warren Han, Ben Ouellette, Conor Grasso, Jackie Swapp, Vivian Ha, Ahrial Young, Shiella Caldejon, Ali Williford, Peter Groblewski, Shawn Olsen, Carly Kiselycznyk, Jerome Lecoq, Hillel Adesnik

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Preprint

Stimulus novelty uncovers coding diversity in visual cortical circuits

Feb 17, 2023

Marina Garrett, Peter Groblewski, Alex Piet, Doug Ollerenshaw, Farzaneh Najafi, Iryna Yavorska, Adam Amster, Corbett Bennett, Michael Buice, Shiella Caldejon, Linzy Casal, Florence D’Orazi, Scott Daniel, Saskia EJ de Vries, Daniel Kapner, Justin Kiggins, Jerome Lecoq, Peter Ledochowitsch, Sahar Manavi, Nicholas Mei, Christopher B. Morrison, Sarah Naylor, Natalia Orlova, Jed Perkins, Nick Ponvert, Clark Roll, Sam Seid, Derric Williams, Allison Williford, Ruweida Ahmed, Daniel Amine, Yazan Billeh, Chris Bowman, Nicholas Cain, Andrew Cho, Tim Dawe, Max Departee, Marie Desoto, David Feng, Sam Gale, Emily Gelfand, Nile Gradis, Conor Grasso, Nicole Hancock, Brian Hu, Ross Hytnen, Xiaoxuan Jia, Tye Johnson, India Kato, Sara Kivikas, Leonard Kuan, Quinn L’Heureux, Sophie Lambert, Arielle Leon, Elizabeth Liang, Fuhui Long, Kyla Mace, Ildefons Magrans de Abril, Chris Mochizuki, Chelsea Nayan, Katherine North, Lydia Ng, Gabriel Koch Ocker, Michael Oliver, Paul Rhoads, Kara Ronellenfitch, Kathryn Schelonka, Josh Sevigny, David Sullivan, Ben Sutton, Jackie Swapp, Thuyanh K. Nguyen, Xana Waughman, Joshua Wilkes, Michael Wang, Colin Farrell, Wayne Wakeman, Hongkui Zeng, John Phillips, Stefan Mihalas, Anton Arkhipov, Christof Koch, Shawn R. Olsen

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Journal of Neuroscience Methods

A standardized head-fixation system for performing large-scale, in vivo physiological recordings in mice

Dec 01, 2020

P. A. Groblewski, D. Sullivan, J. Lecoq, S. E. J. de Vries, S. Caldejon, Q. L'Heureux, T. Keenan, K. Roll, C. Slaughterback, A. Williford, C. Farrell

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