Publications — Lee Lab | Wei-Chung Allen Lee, PhD

Selected Publications & Preprints

Synaptic architecture of leg and wing motor control networks in Drosophila

Ellen Lesser*, Anthony W Azevedo*, Jasper S Phelps, Leila Elabbady, Andrew P Cook, Brandon Mark, Sumiya Kuroda, Anne Sustar, Anthony J Moussa, Chris J Dallmann, Sweta Agrawal, Su-Yee J Lee, Brandon G Pratt, Kyobi Skutt-Kakari, Stephan Gerhard, Ran Lu, Nico Kemnitz, Kisuk Lee, Akhilesh Halageri, Manuel Castro, Dodam Ih, Jay Gager, Marwan Tammam, Sven Dorkenwald, Forrest C Collman, Casey M Schneider-Mizell, Derrick Brittain, Chris S Jordan, Thomas Macrina, Michael H Dickinson, Wei-Chung Allen Lee†, John C Tuthill†. Nature (2024). *contributed equally, †co-corresponding authors

Connectomic reconstruction of a female Drosophila ventral nerve cord

Anthony Azevedo*, Ellen Lesser*, Brandon Mark*, Jasper S Phelps*, Leila Elabbady, Sumiya Kuroda, Anne Sustar, Anthony Moussa, Avinash Kandelwal, Chris J Dallmann, Sweta Agrawal, Su-Yee J Lee, Brandon Pratt,Andrew Cook, Kyobi Skutt-Kakaria, Stephan Gerhard, Ran Lu, Nico Kemnitz, Kisuk Lee, Akhilesh Halageri, Manuel Castro, Dodam Ih, Jay Gager, Marwan Tammam, Sven Dorkenwald, Forrest Collman, Casey Schneider-Mizell, Derrick Brittain, Chris S Jordan, Michael Dickinson, Alexandra Pacureanu, H Sebastian Seung, Thomas Macrina, Wei-Chung Allen Lee†, John C Tuthill†. Nature (2024). *contributed equally, †co-corresponding authors

Synaptic wiring motifs in posterior parietal cortex support decision-making

Aaron T Kuan*, Giulio Bondanelli*, Laura N Driscoll, Julie Han, Minsu Kim, David GC Hildebrand, Brett J Graham, Daniel E Wilson, Logan A Thomas, Stefano Panzeri†, Christopher D Harvey†, Wei-Chung Allen Lee†. Nature (2024). *contributed equally, †co-corresponding authors

Structured cerebellar connectivity supports resilient pattern separation

Tri M Nguyen*, Logan A Thomas*, Jeff L Rhoades, Ilaria Ricchi, Xintong Cindy Yuan, Arlo Sheridan, David GC Hildebrand, Jan Funke, Wade G Regehr, Wei-Chung Allen Lee. Nature (2023). *contributed equally

Reconstruction of motor control circuits in adult Drosophila using automated transmission electron microscopy

Jasper S Phelps*, David Grant Colburn Hildebrand*, Brett J Graham*, Aaron T Kuan, Logan A Thomas, Tri Nguyen, Julia Buhmann, Anthony W Azevedo, Anne Sustar, Sweta Agrawal, Mingguan Liu, Brendan L Shanny, Jan Funke, John C Tuthill, Wei-Chung Allen Lee. Cell (2021). *contributed equally

Dense neuronal reconstruction through X-ray holographic nano-tomography

Aaron T Kuan*, Jasper S Phelps*, Logan A Thomas, Tri M Nguyen, Julie Han, Chiao-Lin Chen, Anthony W Azevedo, John C Tuthill, Jan Funke, Peter Cloetens, Alexandra Pacureanu†, Wei-Chung Allen Lee†. Nature Neuroscience (2020). *contributed equally, †co-corresponding authors

Research Highlight: X-ray Connectomics. Nina Vogt. Nature Methods (2020).

Wiring variations that enable and constrain neural computation in a sensory microcircuit

William F Tobin, Rachel I Wilson†, and Wei-Chung Allen Lee†. eLife (2017). †co-corresponding authors

Additional Publications & preprints

Permanent deconstruction of intracellular primary cilia in differentiating granule cell neurons

Carolyn M Ott*, Sandii Constable*, Tri M Nguyen, Kevin White, Wei-Chung Allen Lee , Jennifer Lippincott-Schwartz, Saikat Mukhopadhyay. Journal of Cell Biology (2024). *contributed equally

Characteristics of blood-brain barrier heterogeneity between brain regions revealed by profiling vascular and perivascular cells

Sarah J Pfau*, Urs H Langen*, Theodore M Fisher, Indumathi Prakash, Faheem Nagpurwala, Ricardo A Lozoya, Wei-Chung Allen Lee, Zhuhao Wu, Chenghua Gu. Nature Neuroscience (2024). *contributed equally

CEREBELLAR CIRCUITS FOR DISINHIBITION AND SYNCHRONOUS INHIBITION

Elizabeth P Lackey*, Luis Moreira*, Aliya Norton*, Marie E Hemelt, Tomas Osorno, Tri M Nguyen, Evan Z Macosko, Wei-Chung Allen Lee, Court A Hull, Wade G Regehr. Neuron (2024). *contributed equally

Comparative connectomics of the descending and ascending neurons of the Drosophila nervous system: stereotypy and sexual dimorphism

Tomke Stürner*, Paul Brooks*, Laia Serratosa Capdevila, Billy J Morris, Alexandre Javier, Siqi Fang, Marina Gkantia, Sebastian Cachero, Isabella R Beckett, Andrew S Champion, Ilina Moitra, Alana Richards, Finja Klemm, Leonie Kugel, Shigehiro Namiki, Han SJ Cheong, Julie Kovalyak, Emily Tenshaw, Ruchi Parekh, Philipp Schlegel, Jasper S Phelps, Brandon Mark, Sven Dorkenwald, Alexander S Bates, Arie Matsliah, Szi-chieh Yu, Claire E McKellar, Amy Sterling, Sebastian Seung, Mala Murthy, John Tuthill, Wei-Chung A Lee, Gwyneth M Card, Marta Costa, Gregory SXE Jefferis, Katharina Eichler. bioRxiv (2024). *contributed equally

Scalable electron tomography for connectomics

Aaron T Kuan*, Sébastien Phan*, Keun-Young Kim, Mason Mackey, Minsu Kim, Steven T Peltier, Mark Ellisman, Wei-Chung Allen Lee. bioRxiv (2024). *contributed equally

Ultrastructural differences impact cilia shape and external exposure across cell classes in the visual cortex

Carolyn M Ott* , Russel Torres*, Tung-Sheng Kuan, Aaron Kuan, JoAnn Buchanan, Leila Elabbady, Sharmishtaa Seshamani, Agnes L. Bodor, Forrest Collman, Davi D Bock, Wei-Chung Allen Lee, Nuno Maçarico da Costa, Jennifer Lippincott-Schwartz. Current Biology (2024). *contributed equally

Organization of an Ascending Circuit that Conveys Flight Motor State

Han SJ Cheong*, Kaitlyn N Boone*, Marryn M Bennett*, Farzaan Salman, Jacob D Ralston, Kaleb Hatch, Raven F Allen, Alec M Phelps, Andrew P Cook, Jasper S Phelps, Mert Erginkaya, Wei-Chung Allen Lee, Gwyneth M Card, Kevin C Daly, Andrew M Dacks. Current Biology (2024). *contributed equally

The projection-specific signals that establish functionally segregated dopaminergic synapses

Akiko Terauchi, Patricia Yee, Erin M Johnson-Venkatesh, Mariel P Seiglie, Lisa Kim, Julia C Pitino, Eli Kritzer, Qiyu Zhang, Jie Zhou, Yulong Li, David D Ginty, Wei-Chung Allen Lee, Hisashi Umemori. Cell (2023).

Three-dimensional reconstructions of mechanosensory end organs suggest a unifying mechanism underlying dynamic, light touch

Annie Handler*, Qiyu Zhang*, Song Pang, Tri M Nguyen, Michael Iskols, Michael Nolan-Tamariz, Stuart Cattel, Rebecca Plumb, Brianna Sanchez, Karyl Ashjian, Aria Shotland, Bartianna Brown, Madiha Kabeer, Josef Turecek, Michelle M DeLisle, Genelle Rankin, Wangchu Xiang, Elisa C Pavarino, Nusrat Africawala, Celine Santiago, Wei-Chung Allen Lee, C Shan Xu, David D Ginty. Neuron (2023). *contributed equally

Preview: Engineering mechanoreceptor feature selectivity. Joriene C de Nooij. Neuron (2023).

Biomechanical origins of proprioceptive maps in the Drosophila leg

Akira Mamiya, Anne Sustar, Igor Siwanowicz, Yanyan Qi, Tzu-Chiao Lu, Pralaksha Gurung, Chenghao Chen, Jasper S Phelps, Aaron T Kuan, Alexandra Pacureanu, Wei-Chung Allen Lee, Hongjie Li, Natasha Mhatre, John C Tuthill. Neuron (2023).

Preview: Engineering mechanoreceptor feature selectivity. Joriene C de Nooij. Neuron (2023).

Local Shape Descriptors for Neuron Segmentation

Arlo Sheridan, Tri M Nguyen, Diptodip Deb, Wei-Chung Allen Lee, Stephan Saalfeld, Srinivas Turaga, Uri Manor, Jan Funke. Nature Methods (2022).

Candelabrum cells are molecularly distinct ubiquitous interneurons of the cerebellar cortex with specialized circuit properties

Tomas Osorno, Stephanie Rudolph, Tri Nguyen, Velina Kozareva, Naeem Nadaf, Evan Z Macosko, Wei-Chung Allen Lee, Wade G Regehr. Nature Neuroscience (2022).

Astrocyte-neuron crosstalk through Hedgehog signaling mediates cortical synapse development

Yajun Xie, Aaron T Kuan, Wengang Wang, Zachary T Herbert, Olivia Mosto, Olubusola Olukoya, Manal Adam, Steve Vu, Minsu Kim, Diana Tran, Nicolás Gómez, Claire Charpentier, Ingie Sorour, Tiara E Lacey, Michael Y Tolstorukov, Bernardo L Sabatini, Wei-Chung Allen Lee, Corey C Harwell. Cell Reports (2022).

Functional architecture of neural circuits for leg proprioception in Drosophila

Chenghao Chen, Sweta Agrawal, Brandon Mark, Akira Mamiya, Anne Sustar, Jasper S Phelps, Wei-Chung Allen Lee, Barry J Dickson, Gwyneth M Card, John C Tuthill. Current Biology (2021).

Automatic detection of synaptic partners in a whole-brain Drosophila electron microscopy data set

Julia Buhmann, Arlo Sheridan, Caroline Malin-Mayor, Philipp Schlegel, Stephan Gerhard, Tom Kazimiers, Renate Krause, Tri M Nguyen, Larissa Heinrich, Wei-Chung Allen Lee, Rachel Wilson, Stephan Saalfeld, Gregory SXE Jefferis, Davi D Bock, Srinivas C Turaga, Matthew Cook, Jan Funke. Nature Methods (2021).

Sensory Experience Engages Microglia to Shape Neural Connectivity through a Non-Phagocytic Mechanism

Lucas Cheadle, Samuel A Rivera, Jasper S Phelps, Katelin A Ennis, Beth Stevens, Linda C Burkly, Wei-Chung Allen Lee, Michael E Greenberg. Neuron (2020).

Multiplexed peroxidase-based electron microscopy labeling enables simultaneous visualization of multiple cell types

Qiyu Zhang, Wei-Chung Allen Lee, David L Paul, and David D Ginty. Nature Neuroscience (2019).

The ESCRT-III Protein CHMP1A Mediates Secretion of Sonic Hedgehog on a Distinctive Subtype of Extracellular Vesicles

Michael E Coulter, Cristina M Dorobantu, Gerrald A Lodewijk, François Delalande, Sarah Cianferani, Vijay S Ganesh, Richard S Smith, Elaine T Lim, Shan C Xu, Song Pang, Eric T Wong, Hart GW Lidov, Monica L Calicchio, Edward Yang, Dilenny M Gonzalez, Thorsten M Schlaeger, Ganeshwaran H Mochida, Harald Hess, Wei-Chung Allen Lee, Maria K Lehtinen, Tomas Kirchhausen, David Haussler, Frank MJ Jacobs, Raphael Gaudin, and Christopher A Walsh. Cell Reports (2018).

Whole-brain serial-section electron microscopy in larval zebrafish

David Grant Colburn Hildebrand, Marcelo Cicconet, Russel Miguel Torres, Woohyuk Choi, Tran Minh Quan, Jungmin Moon, Arthur Willis Wetzel, Andrew Scott Champion, Brett Jesse Graham, Owen Randlett, George Scott Plummer, Ruben Portugues, Isaac Henry Bianco, Stephan Saalfeld, Alexander David Baden, Kunal Lillaney, Randal Burns, Joshua Tzvi Vogelstein, Alexander Franz Schier, Wei-Chung Allen Lee, Won-Ki Jeong, Jeff William Lichtman, and Florian Engert. Nature (2017).

Pre-Lee Lab Publications

Anatomy and function of an excitatory network in the visual cortex

Wei-Chung Allen Lee, Vincent Bonin, Michael Reed, Brett J Graham, Greg Hood, Katie Glattfelder, and R Clay Reid. Nature (2016).

Inhibitory dendrite dynamics as a general feature of the adult cortical microcircuit

Jerry L Chen, Genevieve H Flanders, Wei-Chung Allen Lee, Walter C Lin, and Elly Nedivi. Journal of Neuroscience (2011).

Large-scale automated histology in the pursuit of connectomes

David Kleinfeld, Arjun Bharioke, Pablo Blinder, Davi D Bock, Kevin L Briggman, Dmitri B Chklovskii, Winfried Denk, Moritz Helmstaedter, John P Kaufhold, Wei-Chung Allen Lee, Hanno S Meyer, Kristina D Micheva, Marcel Oberlaender, Steffen Prohaska, R Clay Reid, Stephen J Smith, Shinya Takemura, Philbert S Tsai, and Bert Sakmann. Journal of Neuroscience (2011).

Specificity and randomness: structure-function relationships in neural circuits

Wei-Chung Allen Lee and R Clay Reid. Current Opinion in Neurobiology (2011).

Network anatomy and in vivo physiology of visual cortical neurons

Davi D Bock, Wei-Chung Allen Lee, Aaron M Kerlin, Mark L Andermann, Greg Hood, Arthur W Wetzel, Sergey Yurgenson, Edward R Soucy, Hyon Suk Kim, and R Clay Reid. Nature (2011).

Long-term, high-resolution imaging in the mouse neocortex through a chronic cranial window

Anthony Holtmaat, Tobias Bonhoeffer, David K Chow, Jyoti Chuckowree, Vincenzo De Paola, Sonja B Hofer, Mark Hübener, Tara Keck, Graham Knott, Wei-Chung Allen Lee, Ricardo Mostany, Tom D Mrsic-Flogel, Elly Nedivi, Carlos Portera-Cailliau, Karel Svoboda, Joshua T Trachtenberg, and Linda Wilbrecht. Nature Protocols (2009).