Bio:
Zizhen Yao joined the Allen Institute for Brain Science in 2014 as part of a large interdisciplinary effort to categorize the diversity of neural cell types and the molecular mechanisms leading to cell type specificity. Prior to joining the Allen Institute for Brain Science, she worked at Fred Hutchinson Cancer Research Center developing computational techniques for analyzing high throughput epigenetic and transcriptomic data to study myogenesis and neurogenesis during normal development and in disease.
Zizhen Yao received a Ph.D. in computer science from University of Washington in Seattle, where she studied in silico genome screening of functional noncoding RNAs.
Research Focus:
I am interested in genetic and epigenetic regulation of transcription factors for cell fate determination during brain development in comparison to development in other systems to understand general principles of cell differentiation.Publications
Nature
A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain
Dec 01, 2023
Zizhen Yao, Cindy T. J. van Velthoven, Michael Kunst, Meng Zhang, Delissa McMillen, Changkyu Lee, Won Jung, Jeff Goldy, Aliya Abdelhak, Matthew Aitken, Katherine Baker, Pamela Baker, Eliza Barkan, Darren Bertagnolli, Ashwin Bhandiwad, Cameron Bielstein, Prajal Bishwakarma, Jazmin Campos, Daniel Carey, Tamara Casper, Anish Bhaswanth Chakka, Rushil Chakrabarty, Sakshi Chavan, Min Chen, Michael Clark, Jennie Close, Kirsten Crichton, Scott Daniel, Peter DiValentin, Tim Dolbeare, Lauren Ellingwood, Elysha Fiabane, Timothy Fliss, James Gee, James Gerstenberger, Alexandra Glandon, Jessica Gloe, Joshua Gould, James Gray, Nathan Guilford, Junitta Guzman, Daniel Hirschstein, Windy Ho, Marcus Hooper, Mike Huang, Madie Hupp, Kelly Jin, Matthew Kroll, Kanan Lathia, Arielle Leon, Su Li, Brian Long, Zach Madigan, Jessica Malloy, Jocelin Malone, Zoe Maltzer, Naomi Martin, Rachel McCue, Ryan McGinty, Nicholas Mei, Jose Melchor, Emma Meyerdierks, Tyler Mollenkopf, Skyler Moonsman, Thuc Nghi Nguyen, Sven Otto, Trangthanh Pham, Christine Rimorin, Augustin Ruiz, Raymond Sanchez, Lane Sawyer, Nadiya Shapovalova, Noah Shepard, Cliff Slaughterbeck, Josef Sulc, Michael Tieu, Amy Torkelson, Herman Tung, Nasmil Valera Cuevas, Shane Vance, Katherine Wadhwani, Katelyn Ward, Boaz Levi, Colin Farrell, Rob Young, Brian Staats, Ming-Qiang Michael Wang, Carol L. Thompson, Shoaib Mufti, Chelsea M. Pagan, Lauren Kruse, Nick Dee, Susan M. Sunkin, Luke Esposito, Michael J. Hawrylycz, Jack Waters, Lydia Ng, Kimberly Smith, Bosiljka Tasic, Xiaowei Zhuang, Hongkui Zeng
Read MoreNature
A transcriptomic taxonomy of mouse brain-wide spinal projecting neurons
Dec 01, 2023
Carla C. Winter, Anne Jacobi, Junfeng Su, Leeyup Chung, Cindy T. J. van Velthoven, Zizhen Yao, Changkyu Lee, Zicong Zhang, Shuguang Yu, Kun Gao, Geraldine Duque Salazar, Evgenii Kegeles, Yu Zhang, Makenzie C. Tomihiro, Yiming Zhang, Zhiyun Yang, Junjie Zhu, Jing Tang, Xuan Song, Ryan J. Donahue, Qing Wang, Delissa McMillen, Michael Kunst, Ning Wang, Kimberly A. Smith, Gabriel E. Romero, Michelle M. Frank, Alexandra Krol, Riki Kawaguchi, Daniel H. Geschwind, Guoping Feng, Lisa V. Goodrich, Yuanyuan Liu, Bosiljka Tasic, Hongkui Zeng, Zhigang He
Read MoreNature
Single-cell analysis of chromatin accessibility in the adult mouse brain
Dec 01, 2023
Songpeng Zu, Yang Eric Li, Kangli Wang, Ethan J. Armand, Sainath Mamde, Maria Luisa Amaral, Yuelai Wang, Andre Chu, Yang Xie, Michael Miller, Jie Xu, Zhaoning Wang, Kai Zhang, Bojing Jia, Xiaomeng Hou, Lin Lin, Qian Yang, Seoyeon Lee, Bin Li, Samantha Kuan, Hanqing Liu, Jingtian Zhou, Antonio Pinto-Duarte, Jacinta Lucero, Julia Osteen, Michael Nunn, Kimberly A. Smith, Bosiljka Tasic, Zizhen Yao, Hongkui Zeng, Zihan Wang, Jingbo Shang, M. Margarita Behrens, Joseph R. Ecker, Allen Wang, Sebastian Preissl, Bing Ren
Read MoreNature
Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain
Dec 01, 2023
Hanqing Liu, Qiurui Zeng, Jingtian Zhou, Anna Bartlett, Bang-An Wang, Peter Berube, Wei Tian, Mia Kenworthy, Jordan Altshul, Joseph R. Nery, Huaming Chen, Rosa G. Castanon, Songpeng Zu, Yang Eric Li, Jacinta Lucero, Julia K. Osteen, Antonio Pinto-Duarte, Jasper Lee, Jon Rink, Silvia Cho, Nora Emerson, Michael Nunn, Carolyn O'Connor, Zhanghao Wu, Ion Stoica, Zizhen Yao, Kimberly A. Smith, Bosiljka Tasic, Chongyuan Luo, Jesse R. Dixon, Hongkui Zeng, Bing Ren, M. Margarita Behrens, Joseph R. Ecker
Read MoreNature
Molecularly defined and spatially resolved cell atlas of the whole mouse brain
Dec 01, 2023
Meng Zhang, Xingjie Pan, Won Jung, Aaron R. Halpern, Stephen W. Eichhorn, Zhiyun Lei, Limor Cohen, Kimberly A. Smith, Bosiljka Tasic, Zizhen Yao, Hongkui Zeng, Xiaowei Zhuang
Read MoreScience (New York, N.Y.)
Morphoelectric and transcriptomic divergence of the layer 1 interneuron repertoire in human versus mouse neocortex
Oct 13, 2023
Thomas Chartrand, Rachel Dalley, Jennie Close, Natalia A. Goriounova, Brian R. Lee, Rusty Mann, Jeremy A. Miller, Gabor Molnar, Alice Mukora, Lauren Alfiler, Katherine Baker, Trygve E. Bakken, Jim Berg, Darren Bertagnolli, Thomas Braun, Krissy Brouner, Tamara Casper, Eva Adrienn Csajbok, Nick Dee, Tom Egdorf, Rachel Enstrom, Anna A. Galakhova, Amanda Gary, Emily Gelfand, Jeff Goldy, Kristen Hadley, Tim S. Heistek, DiJon Hill, Nik Jorstad, Lisa Kim, Agnes Katalin Kocsis, Lauren Kruse, Michael Kunst, Gabriela Leon, Brian Long, Matthew Mallory, Medea McGraw, Delissa McMillen, Erica J. Melief, Norbert Mihut, Lindsay Ng, Julie Nyhus, Gáspár Oláh, Attila Ozsvár, Victoria Omstead, Zoltan Peterfi, Alice Pom, Lydia Potekhina, Ramkumar Rajanbabu, Marton Rozsa, Augustin Ruiz, Joanna Sandle, Susan M. Sunkin, Ildiko Szots, Michael Tieu, Martin Toth, Jessica Trinh, Sara Vargas, David Vumbaco, Grace Williams, Julia Wilson, Zizhen Yao, Pal Barzo, Charles Cobbs, Richard G. Ellenbogen, Luke Esposito, Manuel Ferreira, Nathan W. Gouwens, Benjamin Grannan, Ryder P. Gwinn, Jason S. Hauptman, Tim Jarsky, C. Dirk Keene, Andrew L. Ko, Christof Koch, Jeffrey G. Ojemann, Anoop Patel, Jacob Ruzevick, Daniel L. Silbergeld, Kimberly Smith, Staci A. Sorensen, Bosiljka Tasic, Jonathan T. Ting, Jack Waters, Christiaan P. J. de Kock, Huib D. Mansvelder, Gabor Tamas, Hongkui Zeng, Brian Kalmbach, Ed S. Lein
Read MoreCell Genomics
Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes
Jul 12, 2023
Fangming Xie, Ethan J. Armand, Zizhen Yao, Hanqing Liu, Anna Bartlett, M. Margarita Behrens, Yang Eric Li, Jacinta D. Lucero, Chongyuan Luo, Joseph R. Nery, Antonio Pinto-Duarte, Olivier B. Poirion, Sebastian Preissl, Angeline C. Rivkin, Bosiljka Tasic, Hongkui Zeng, Bing Ren, Joseph R. Ecker, Eran A. Mukamel
Read MorePLoS biology
A guide to the BRAIN Initiative Cell Census Network data ecosystem
Jun 01, 2023
Michael Hawrylycz, Maryann E. Martone, Giorgio A. Ascoli, Jan G. Bjaalie, Hong-Wei Dong, Satrajit S. Ghosh, Jesse Gillis, Ronna Hertzano, David R. Haynor, Patrick R. Hof, Yongsoo Kim, Ed Lein, Yufeng Liu, Jeremy A. Miller, Partha P. Mitra, Eran Mukamel, Lydia Ng, David Osumi-Sutherland, Hanchuan Peng, Patrick L. Ray, Raymond Sanchez, Aviv Regev, Alex Ropelewski, Richard H. Scheuermann, Shawn Zheng Kai Tan, Carol L. Thompson, Timothy Tickle, Hagen Tilgner, Merina Varghese, Brock Wester, Owen White, Hongkui Zeng, Brian Aevermann, David Allemang, Seth Ament, Thomas L. Athey, Cody Baker, Katherine S. Baker, Pamela M. Baker, Anita Bandrowski, Samik Banerjee, Prajal Bishwakarma, Ambrose Carr, Min Chen, Roni Choudhury, Jonah Cool, Heather Creasy, Florence D'Orazi, Kylee Degatano, Benjamin Dichter, Song-Lin Ding, Tim Dolbeare, Joseph R. Ecker, Rongxin Fang, Jean-Christophe Fillion-Robin, Timothy P. Fliss, James Gee, Tom Gillespie, Nathan Gouwens, Guo-Qiang Zhang, Yaroslav O. Halchenko, Nomi L. Harris, Brian R. Herb, Houri Hintiryan, Gregory Hood, Sam Horvath, Bingxing Huo, Dorota Jarecka, Shengdian Jiang, Farzaneh Khajouei, Elizabeth A. Kiernan, Huseyin Kir, Lauren Kruse, Changkyu Lee, Boudewijn Lelieveldt, Yang Li, Hanqing Liu, Lijuan Liu, Anup Markuhar, James Mathews, Kaylee L. Mathews, Chris Mezias, Michael I. Miller, Tyler Mollenkopf, Shoaib Mufti, Christopher J. Mungall, Joshua Orvis, Maja A. Puchades, Lei Qu, Joseph P. Receveur, Bing Ren, Nathan Sjoquist, Brian Staats, Daniel Tward, Cindy T. J. van Velthoven, Quanxin Wang, Fangming Xie, Hua Xu, Zizhen Yao, Zhixi Yun, Yun Renee Zhang, W. Jim Zheng, Brian Zingg
Read MoreCell Reports
Single-neuron models linking electrophysiology, morphology, and transcriptomics across cortical cell types
Nov 08, 2022
Anirban Nandi, Thomas Chartrand, Werner Van Geit, Anatoly Buchin, Zizhen Yao, Soo Yeun Lee, Yina Wei, Brian Kalmbach, Brian Lee, Ed Lein, Jim Berg, Uygar Sümbül, Christof Koch, Bosiljka Tasic, Costas A. Anastassiou
Read MoreScience (New York, N.Y.)
Dense functional and molecular readout of a circuit hub in sensory cortex
Jan 07, 2022
Cameron Condylis, Abed Ghanbari, Nikita Manjrekar, Karina Bistrong, Shenqin Yao, Zizhen Yao, Thuc Nghi Nguyen, Hongkui Zeng, Bosiljka Tasic, Jerry L. Chen
Read MoreNature
A multimodal cell census and atlas of the mammalian primary motor cortex
Oct 01, 2021
BRAIN Initiative Cell Census Network (BICCN)
Read MoreNature
Isoform cell-type specificity in the mouse primary motor cortex
Oct 01, 2021
A. Sina Booeshaghi, Zizhen Yao, Cindy van Velthoven, Kimberly Smith, Bosiljka Tasic, Hongkui Zeng, Lior Pachter
Read MoreNature
Morphological diversity of single neurons in molecularly defined cell types
Oct 01, 2021
Hanchuan Peng, Peng Xie, Lijuan Liu, Xiuli Kuang, Yimin Wang, Lei Qu, Hui Gong, Shengdian Jiang, Anan Li, Zongcai Ruan, Liya Ding, Zizhen Yao, Chao Chen, Mengya Chen, Tanya L. Daigle, Rachel Dalley, Zhangcan Ding, Yanjun Duan, Aaron Feiner, Ping He, Chris Hill, Karla E. Hirokawa, Guodong Hong, Lei Huang, Sara Kebede, Hsien-Chi Kuo, Rachael Larsen, Phil Lesnar, Longfei Li, Qi Li, Xiangning Li, Yaoyao Li, Yuanyuan Li, An Liu, Donghuan Lu, Stephanie Mok, Lydia Ng, Thuc Nghi Nguyen, Qiang Ouyang, Jintao Pan, Elise Shen, Yuanyuan Song, Susan M. Sunkin, Bosiljka Tasic, Matthew B. Veldman, Wayne Wakeman, Wan Wan, Peng Wang, Quanxin Wang, Tao Wang, Yaping Wang, Feng Xiong, Wei Xiong, Wenjie Xu, Min Ye, Lulu Yin, Yang Yu, Jia Yuan, Jing Yuan, Zhixi Yun, Shaoqun Zeng, Shichen Zhang, Sujun Zhao, Zijun Zhao, Zhi Zhou, Z. Josh Huang, Luke Esposito, Michael J. Hawrylycz, Staci A. Sorensen, X. William Yang, Yefeng Zheng, Zhongze Gu, Wei Xie, Christof Koch, Qingming Luo, Julie A. Harris, Yun Wang, Hongkui Zeng
Read MoreNature
Human neocortical expansion involves glutamatergic neuron diversification
Oct 01, 2021
Jim Berg, Staci A. Sorensen, Jonathan T. Ting, Jeremy A. Miller, Thomas Chartrand, Anatoly Buchin, Trygve E. Bakken, Agata Budzillo, Nick Dee, Song-Lin Ding, Nathan W. Gouwens, Rebecca D. Hodge, Brian Kalmbach, Changkyu Lee, Brian R. Lee, Lauren Alfiler, Katherine Baker, Eliza Barkan, Allison Beller, Kyla Berry, Darren Bertagnolli, Kris Bickley, Jasmine Bomben, Thomas Braun, Krissy Brouner, Tamara Casper, Peter Chong, Kirsten Crichton, Rachel Dalley, Rebecca de Frates, Tsega Desta, Samuel Dingman Lee, Florence D'Orazi, Nadezhda Dotson, Tom Egdorf, Rachel Enstrom, Colin Farrell, David Feng, Olivia Fong, Szabina Furdan, Anna A. Galakhova, Clare Gamlin, Amanda Gary, Alexandra Glandon, Jeff Goldy, Melissa Gorham, Natalia A. Goriounova, Sergey Gratiy, Lucas Graybuck, Hong Gu, Kristen Hadley, Nathan Hansen, Tim S. Heistek, Alex M. Henry, Djai B. Heyer, DiJon Hill, Chris Hill, Madie Hupp, Tim Jarsky, Sara Kebede, Lisa Keene, Lisa Kim, Mean-Hwan Kim, Matthew Kroll, Caitlin Latimer, Boaz P. Levi, Katherine E. Link, Matthew Mallory, Rusty Mann, Desiree Marshall, Michelle Maxwell, Medea McGraw, Delissa McMillen, Erica Melief, Eline J. Mertens, Leona Mezei, Norbert Mihut, Stephanie Mok, Gabor Molnar, Alice Mukora, Lindsay Ng, Kiet Ngo, Philip R. Nicovich, Julie Nyhus, Gaspar Olah, Aaron Oldre, Victoria Omstead, Attila Ozsvar, Daniel Park, Hanchuan Peng, Trangthanh Pham, Christina A. Pom, Lydia Potekhina, Ramkumar Rajanbabu, Shea Ransford, David Reid, Christine Rimorin, Augustin Ruiz, David Sandman, Josef Sulc, Susan M. Sunkin, Aaron Szafer, Viktor Szemenyei, Elliot R. Thomsen, Michael Tieu, Amy Torkelson, Jessica Trinh, Herman Tung, Wayne Wakeman, Femke Waleboer, Katelyn Ward, René Wilbers, Grace Williams, Zizhen Yao, Jae-Geun Yoon, Costas Anastassiou, Anton Arkhipov, Pal Barzo, Amy Bernard, Charles Cobbs, Philip C. de Witt Hamer, Richard G. Ellenbogen, Luke Esposito, Manuel Ferreira, Ryder P. Gwinn, Michael J. Hawrylycz, Patrick R. Hof, Sander Idema, Allan R. Jones, C. Dirk Keene, Andrew L. Ko, Gabe J. Murphy, Lydia Ng, Jeffrey G. Ojemann, Anoop P. Patel, John W. Phillips, Daniel L. Silbergeld, Kimberly Smith, Bosiljka Tasic, Rafael Yuste, Idan Segev, Christiaan P. J. de Kock, Huibert D. Mansvelder, Gabor Tamas, Hongkui Zeng, Christof Koch, Ed S. Lein
Read MoreNature
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex
Oct 01, 2021
Zizhen Yao, Hanqing Liu, Fangming Xie, Stephan Fischer, Ricky S. Adkins, Andrew I. Aldridge, Seth A. Ament, Anna Bartlett, M. Margarita Behrens, Koen Van den Berge, Darren Bertagnolli, Hector Roux de Bézieux, Tommaso Biancalani, A. Sina Booeshaghi, Héctor Corrada Bravo, Tamara Casper, Carlo Colantuoni, Jonathan Crabtree, Heather Creasy, Kirsten Crichton, Megan Crow, Nick Dee, Elizabeth L. Dougherty, Wayne I. Doyle, Sandrine Dudoit, Rongxin Fang, Victor Felix, Olivia Fong, Michelle Giglio, Jeff Goldy, Mike Hawrylycz, Brian R. Herb, Ronna Hertzano, Xiaomeng Hou, Qiwen Hu, Jayaram Kancherla, Matthew Kroll, Kanan Lathia, Yang Eric Li, Jacinta D. Lucero, Chongyuan Luo, Anup Mahurkar, Delissa McMillen, Naeem M. Nadaf, Joseph R. Nery, Thuc Nghi Nguyen, Sheng-Yong Niu, Vasilis Ntranos, Joshua Orvis, Julia K. Osteen, Thanh Pham, Antonio Pinto-Duarte, Olivier Poirion, Sebastian Preissl, Elizabeth Purdom, Christine Rimorin, Davide Risso, Angeline C. Rivkin, Kimberly Smith, Kelly Street, Josef Sulc, Valentine Svensson, Michael Tieu, Amy Torkelson, Herman Tung, Eeshit Dhaval Vaishnav, Charles R. Vanderburg, Cindy van Velthoven, Xinxin Wang, Owen R. White, Z. Josh Huang, Peter V. Kharchenko, Lior Pachter, John Ngai, Aviv Regev, Bosiljka Tasic, Joshua D. Welch, Jesse Gillis, Evan Z. Macosko, Bing Ren, Joseph R. Ecker, Hongkui Zeng, Eran A. Mukamel
Read MoreNature
Spatially resolved cell atlas of the mouse primary motor cortex by MERFISH
Oct 01, 2021
Meng Zhang, Stephen W. Eichhorn, Brian Zingg, Zizhen Yao, Kaelan Cotter, Hongkui Zeng, Hongwei Dong, Xiaowei Zhuang
Read MoreNature
Comparative cellular analysis of motor cortex in human, marmoset and mouse
Oct 01, 2021
Trygve E. Bakken, Nikolas L. Jorstad, Qiwen Hu, Blue B. Lake, Wei Tian, Brian E. Kalmbach, Megan Crow, Rebecca D. Hodge, Fenna M. Krienen, Staci A. Sorensen, Jeroen Eggermont, Zizhen Yao, Brian D. Aevermann, Andrew I. Aldridge, Anna Bartlett, Darren Bertagnolli, Tamara Casper, Rosa G. Castanon, Kirsten Crichton, Tanya L. Daigle, Rachel Dalley, Nick Dee, Nikolai Dembrow, Dinh Diep, Song-Lin Ding, Weixiu Dong, Rongxin Fang, Stephan Fischer, Melissa Goldman, Jeff Goldy, Lucas T. Graybuck, Brian R. Herb, Xiaomeng Hou, Jayaram Kancherla, Matthew Kroll, Kanan Lathia, Baldur van Lew, Yang Eric Li, Christine S. Liu, Hanqing Liu, Jacinta D. Lucero, Anup Mahurkar, Delissa McMillen, Jeremy A. Miller, Marmar Moussa, Joseph R. Nery, Philip R. Nicovich, Sheng-Yong Niu, Joshua Orvis, Julia K. Osteen, Scott Owen, Carter R. Palmer, Thanh Pham, Nongluk Plongthongkum, Olivier Poirion, Nora M. Reed, Christine Rimorin, Angeline Rivkin, William J. Romanow, Adriana E. Sedeño-Cortés, Kimberly Siletti, Saroja Somasundaram, Josef Sulc, Michael Tieu, Amy Torkelson, Herman Tung, Xinxin Wang, Fangming Xie, Anna Marie Yanny, Renee Zhang, Seth A. Ament, M. Margarita Behrens, Hector Corrada Bravo, Jerold Chun, Alexander Dobin, Jesse Gillis, Ronna Hertzano, Patrick R. Hof, Thomas Höllt, Gregory D. Horwitz, C. Dirk Keene, Peter V. Kharchenko, Andrew L. Ko, Boudewijn P. Lelieveldt, Chongyuan Luo, Eran A. Mukamel, António Pinto-Duarte, Sebastian Preissl, Aviv Regev, Bing Ren, Richard H. Scheuermann, Kimberly Smith, William J. Spain, Owen R. White, Christof Koch, Michael Hawrylycz, Bosiljka Tasic, Evan Z. Macosko, Steven A. McCarroll, Jonathan T. Ting, Hongkui Zeng, Kun Zhang, Guoping Feng, Joseph R. Ecker, Sten Linnarsson, Ed S. Lein
Read MoreNature
Phenotypic variation of transcriptomic cell types in mouse motor cortex
Oct 01, 2021
Federico Scala, Dmitry Kobak, Matteo Bernabucci, Yves Bernaerts, Cathryn René Cadwell, Jesus Ramon Castro, Leonard Hartmanis, Xiaolong Jiang, Sophie Laturnus, Elanine Miranda, Shalaka Mulherkar, Zheng Huan Tan, Zizhen Yao, Hongkui Zeng, Rickard Sandberg, Philipp Berens, Andreas S. Tolias
Read MoreeLife
Single-cell and single-nucleus RNA-seq uncovers shared and distinct axes of variation in dorsal LGN neurons in mice, non-human primates, and humans
Sep 02, 2021
Trygve E. Bakken, Cindy Tj van Velthoven, Vilas Menon, Rebecca D. Hodge, Zizhen Yao, Thuc Nghi Nguyen, Lucas T. Graybuck, Gregory D. Horwitz, Darren Bertagnolli, Jeff Goldy, Anna Marie Yanny, Emma Garren, Sheana Parry, Tamara Casper, Soraya I. Shehata, Eliza R. Barkan, Aaron Szafer, Boaz P. Levi, Nick Dee, Kimberly A. Smith, Susan M. Sunkin, Amy Bernard, John Phillips, Michael J. Hawrylycz, Christof Koch, Gabe J. Murphy, Ed Lein, Hongkui Zeng, Bosiljka Tasic
Read MoreCell
A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation
Jun 10, 2021
Zizhen Yao, Cindy T. J. van Velthoven, Thuc Nghi Nguyen, Jeff Goldy, Adriana E. Sedeno-Cortes, Fahimeh Baftizadeh, Darren Bertagnolli, Tamara Casper, Megan Chiang, Kirsten Crichton, Song-Lin Ding, Olivia Fong, Emma Garren, Alexandra Glandon, Nathan W. Gouwens, James Gray, Lucas T. Graybuck, Michael J. Hawrylycz, Daniel Hirschstein, Matthew Kroll, Kanan Lathia, Changkyu Lee, Boaz Levi, Delissa McMillen, Stephanie Mok, Thanh Pham, Qingzhong Ren, Christine Rimorin, Nadiya Shapovalova, Josef Sulc, Susan M. Sunkin, Michael Tieu, Amy Torkelson, Herman Tung, Katelyn Ward, Nick Dee, Kimberly A. Smith, Bosiljka Tasic, Hongkui Zeng
Read MoreCommunications Biology
Control of impulsivity by Gi-protein signalling in layer-5 pyramidal neurons of the anterior cingulate cortex
Jun 02, 2021
Bastiaan van der Veen, Sampath K. T. Kapanaiah, Kasyoka Kilonzo, Peter Steele-Perkins, Martin M. Jendryka, Stefanie Schulz, Bosiljka Tasic, Zizhen Yao, Hongkui Zeng, Thomas Akam, Janet R. Nicholson, Birgit Liss, Wiebke Nissen, Anton Pekcec, Dennis Kätzel
Read MoreNeuron
Enhancer viruses for combinatorial cell-subclass-specific labeling
May 05, 2021
Lucas T. Graybuck, Tanya L. Daigle, Adriana E. Sedeño-Cortés, Miranda Walker, Brian Kalmbach, Garreck H. Lenz, Elyse Morin, Thuc Nghi Nguyen, Emma Garren, Jacqueline L. Bendrick, Tae Kyung Kim, Thomas Zhou, Marty Mortrud, Shenqin Yao, La' Akea Siverts, Rachael Larsen, Bryan B. Gore, Eric R. Szelenyi, Cameron Trader, Pooja Balaram, Cindy T. J. van Velthoven, Megan Chiang, John K. Mich, Nick Dee, Jeff Goldy, Ali H. Cetin, Kimberly Smith, Sharon W. Way, Luke Esposito, Zizhen Yao, Viviana Gradinaru, Susan M. Sunkin, Ed Lein, Boaz P. Levi, Jonathan T. Ting, Hongkui Zeng, Bosiljka Tasic
Read MoreNeuron
Alternating sources of perisomatic inhibition during behavior
Mar 17, 2021
Barna Dudok, Peter M. Klein, Ernie Hwaun, Brian R. Lee, Zizhen Yao, Olivia Fong, John C. Bowler, Satoshi Terada, Fraser T. Sparks, Gergely G. Szabo, Jordan S. Farrell, Jim Berg, Tanya L. Daigle, Bosiljka Tasic, Jordane Dimidschstein, Gord Fishell, Attila Losonczy, Hongkui Zeng, Ivan Soltesz
Read MoreCell
Integrated Morphoelectric and Transcriptomic Classification of Cortical GABAergic Cells
Nov 12, 2020
Nathan W. Gouwens, Staci A. Sorensen, Fahimeh Baftizadeh, Agata Budzillo, Brian R. Lee, Tim Jarsky, Lauren Alfiler, Katherine Baker, Eliza Barkan, Kyla Berry, Darren Bertagnolli, Kris Bickley, Jasmine Bomben, Thomas Braun, Krissy Brouner, Tamara Casper, Kirsten Crichton, Tanya L. Daigle, Rachel Dalley, Rebecca A. de Frates, Nick Dee, Tsega Desta, Samuel Dingman Lee, Nadezhda Dotson, Tom Egdorf, Lauren Ellingwood, Rachel Enstrom, Luke Esposito, Colin Farrell, David Feng, Olivia Fong, Rohan Gala, Clare Gamlin, Amanda Gary, Alexandra Glandon, Jeff Goldy, Melissa Gorham, Lucas Graybuck, Hong Gu, Kristen Hadley, Michael J. Hawrylycz, Alex M. Henry, DiJon Hill, Madie Hupp, Sara Kebede, Tae Kyung Kim, Lisa Kim, Matthew Kroll, Changkyu Lee, Katherine E. Link, Matthew Mallory, Rusty Mann, Michelle Maxwell, Medea McGraw, Delissa McMillen, Alice Mukora, Lindsay Ng, Lydia Ng, Kiet Ngo, Philip R. Nicovich, Aaron Oldre, Daniel Park, Hanchuan Peng, Osnat Penn, Thanh Pham, Alice Pom, Zoran Popović, Lydia Potekhina, Ramkumar Rajanbabu, Shea Ransford, David Reid, Christine Rimorin, Miranda Robertson, Kara Ronellenfitch, Augustin Ruiz, David Sandman, Kimberly Smith, Josef Sulc, Susan M. Sunkin, Aaron Szafer, Michael Tieu, Amy Torkelson, Jessica Trinh, Herman Tung, Wayne Wakeman, Katelyn Ward, Grace Williams, Zhi Zhou, Jonathan T. Ting, Anton Arkhipov, Uygar Sümbül, Ed S. Lein, Christof Koch, Zizhen Yao, Bosiljka Tasic, Jim Berg, Gabe J. Murphy, Hongkui Zeng
Read MoreCell Reports
Distinct Transcriptomic Cell Types and Neural Circuits of the Subiculum and Prosubiculum along the Dorsal-Ventral Axis
May 19, 2020
Song-Lin Ding, Zizhen Yao, Karla E. Hirokawa, Thuc Nghi Nguyen, Lucas T. Graybuck, Olivia Fong, Phillip Bohn, Kiet Ngo, Kimberly A. Smith, Christof Koch, John W. Phillips, Ed S. Lein, Julie A. Harris, Bosiljka Tasic, Hongkui Zeng
Read MoreeLife
Single-cell transcriptomic evidence for dense intracortical neuropeptide networks
Nov 11, 2019
Stephen J. Smith, Uygar Sümbül, Lucas T. Graybuck, Forrest Collman, Sharmishtaa Seshamani, Rohan Gala, Olga Gliko, Leila Elabbady, Jeremy A. Miller, Trygve E. Bakken, Jean Rossier, Zizhen Yao, Ed Lein, Hongkui Zeng, Bosiljka Tasic, Michael Hawrylycz
Read MoreCell
Multimodal Analysis of Cell Types in a Hypothalamic Node Controlling Social Behavior
Oct 17, 2019
Dong-Wook Kim, Zizhen Yao, Lucas T. Graybuck, Tae Kyung Kim, Thuc Nghi Nguyen, Kimberly A. Smith, Olivia Fong, Lynn Yi, Noushin Koulena, Nico Pierson, Sheel Shah, Liching Lo, Allan-Hermann Pool, Yuki Oka, Lior Pachter, Long Cai, Bosiljka Tasic, Hongkui Zeng, David J. Anderson
Read MoreNature
Conserved cell types with divergent features in human versus mouse cortex
Sep 01, 2019
Rebecca D. Hodge, Trygve E. Bakken, Jeremy A. Miller, Kimberly A. Smith, Eliza R. Barkan, Lucas T. Graybuck, Jennie L. Close, Brian Long, Nelson Johansen, Osnat Penn, Zizhen Yao, Jeroen Eggermont, Thomas Höllt, Boaz P. Levi, Soraya I. Shehata, Brian Aevermann, Allison Beller, Darren Bertagnolli, Krissy Brouner, Tamara Casper, Charles Cobbs, Rachel Dalley, Nick Dee, Song-Lin Ding, Richard G. Ellenbogen, Olivia Fong, Emma Garren, Jeff Goldy, Ryder P. Gwinn, Daniel Hirschstein, C. Dirk Keene, Mohamed Keshk, Andrew L. Ko, Kanan Lathia, Ahmed Mahfouz, Zoe Maltzer, Medea McGraw, Thuc Nghi Nguyen, Julie Nyhus, Jeffrey G. Ojemann, Aaron Oldre, Sheana Parry, Shannon Reynolds, Christine Rimorin, Nadiya V. Shapovalova, Saroja Somasundaram, Aaron Szafer, Elliot R. Thomsen, Michael Tieu, Gerald Quon, Richard H. Scheuermann, Rafael Yuste, Susan M. Sunkin, Boudewijn Lelieveldt, David Feng, Lydia Ng, Amy Bernard, Michael Hawrylycz, John W. Phillips, Bosiljka Tasic, Hongkui Zeng, Allan R. Jones, Christof Koch, Ed S. Lein
Read MoreNature
Distinct descending motor cortex pathways and their roles in movement
Nov 01, 2018
Michael N. Economo, Sarada Viswanathan, Bosiljka Tasic, Erhan Bas, Johan Winnubst, Vilas Menon, Lucas T. Graybuck, Thuc Nghi Nguyen, Kimberly A. Smith, Zizhen Yao, Lihua Wang, Charles R. Gerfen, Jayaram Chandrashekar, Hongkui Zeng, Loren L. Looger, Karel Svoboda
Read MoreNature
Shared and distinct transcriptomic cell types across neocortical areas
Nov 01, 2018
Bosiljka Tasic, Zizhen Yao, Lucas T. Graybuck, Kimberly A. Smith, Thuc Nghi Nguyen, Darren Bertagnolli, Jeff Goldy, Emma Garren, Michael N. Economo, Sarada Viswanathan, Osnat Penn, Trygve Bakken, Vilas Menon, Jeremy Miller, Olivia Fong, Karla E. Hirokawa, Kanan Lathia, Christine Rimorin, Michael Tieu, Rachael Larsen, Tamara Casper, Eliza Barkan, Matthew Kroll, Sheana Parry, Nadiya V. Shapovalova, Daniel Hirschstein, Julie Pendergraft, Heather A. Sullivan, Tae Kyung Kim, Aaron Szafer, Nick Dee, Peter Groblewski, Ian Wickersham, Ali Cetin, Julie A. Harris, Boaz P. Levi, Susan M. Sunkin, Linda Madisen, Tanya L. Daigle, Loren Looger, Amy Bernard, John Phillips, Ed Lein, Michael Hawrylycz, Karel Svoboda, Allan R. Jones, Christof Koch, Hongkui Zeng
Read MoreCell
A Suite of Transgenic Driver and Reporter Mouse Lines with Enhanced Brain-Cell-Type Targeting and Functionality
Jul 12, 2018
Tanya L. Daigle, Linda Madisen, Travis A. Hage, Matthew T. Valley, Ulf Knoblich, Rylan S. Larsen, Marc M. Takeno, Lawrence Huang, Hong Gu, Rachael Larsen, Maya Mills, Alice Bosma-Moody, La' Akea Siverts, Miranda Walker, Lucas T. Graybuck, Zizhen Yao, Olivia Fong, Thuc Nghi Nguyen, Emma Garren, Garreck H. Lenz, Mariya Chavarha, Julie Pendergraft, James Harrington, Karla E. Hirokawa, Julie A. Harris, Philip R. Nicovich, Medea J. McGraw, Douglas R. Ollerenshaw, Kimberly A. Smith, Christopher A. Baker, Jonathan T. Ting, Susan M. Sunkin, Jérôme Lecoq, Michael Z. Lin, Edward S. Boyden, Gabe J. Murphy, Nuno M. da Costa, Jack Waters, Lu Li, Bosiljka Tasic, Hongkui Zeng
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Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding
Apr 13, 2018
Alexander B. Rosenberg, Charles M. Roco, Richard A. Muscat, Anna Kuchina, Paul Sample, Zizhen Yao, Lucas T. Graybuck, David J. Peeler, Sumit Mukherjee, Wei Chen, Suzie H. Pun, Drew L. Sellers, Bosiljka Tasic, Georg Seelig
Read MorePloS One
Single-nucleus and single-cell transcriptomes compared in matched cortical cell types
Jan 01, 2018
Trygve E. Bakken, Rebecca D. Hodge, Jeremy A. Miller, Zizhen Yao, Thuc Nghi Nguyen, Brian Aevermann, Eliza Barkan, Darren Bertagnolli, Tamara Casper, Nick Dee, Emma Garren, Jeff Goldy, Lucas T. Graybuck, Matthew Kroll, Roger S. Lasken, Kanan Lathia, Sheana Parry, Christine Rimorin, Richard H. Scheuermann, Nicholas J. Schork, Soraya I. Shehata, Michael Tieu, John W. Phillips, Amy Bernard, Kimberly A. Smith, Hongkui Zeng, Ed S. Lein, Bosiljka Tasic
Read MoreGenome Research
The identification and functional annotation of RNA structures conserved in vertebrates
Aug 01, 2017
Stefan E. Seemann, Aashiq H. Mirza, Claus Hansen, Claus H. Bang-Berthelsen, Christian Garde, Mikkel Christensen-Dalsgaard, Elfar Torarinsson, Zizhen Yao, Christopher T. Workman, Flemming Pociot, Henrik Nielsen, Niels Tommerup, Walter L. Ruzzo, Jan Gorodkin
Read MoreNeuron
Single-Cell Profiling of an In Vitro Model of Human Interneuron Development Reveals Temporal Dynamics of Cell Type Production and Maturation
Mar 08, 2017
Jennie L. Close, Zizhen Yao, Boaz P. Levi, Jeremy A. Miller, Trygve E. Bakken, Vilas Menon, Jonathan T. Ting, Abigail Wall, Anne-Rachel Krostag, Elliot R. Thomsen, Angel M. Nelson, John K. Mich, Rebecca D. Hodge, Soraya I. Shehata, Ian A. Glass, Susan Bort, Nadiya V. Shapovalova, N. Kiet Ngo, Joshua S. Grimley, John W. Phillips, Carol L. Thompson, Sharad Ramanathan, Ed Lein
Read MoreeLife
Layer-specific chromatin accessibility landscapes reveal regulatory networks in adult mouse visual cortex
Jan 23, 2017
Lucas T. Gray, Zizhen Yao, Thuc Nghi Nguyen, Tae Kyung Kim, Hongkui Zeng, Bosiljka Tasic
Read MoreCell Stem Cell
A Single-Cell Roadmap of Lineage Bifurcation in Human ESC Models of Embryonic Brain Development
Jan 05, 2017
Zizhen Yao, John K. Mich, Sherman Ku, Vilas Menon, Anne-Rachel Krostag, Refugio A. Martinez, Leon Furchtgott, Heather Mulholland, Susan Bort, Margaret A. Fuqua, Ben W. Gregor, Rebecca D. Hodge, Anu Jayabalu, Ryan C. May, Samuel Melton, Angelique M. Nelson, N. Kiet Ngo, Nadiya V. Shapovalova, Soraya I. Shehata, Michael W. Smith, Leah J. Tait, Carol L. Thompson, Elliot R. Thomsen, Chaoyang Ye, Ian A. Glass, Ajamete Kaykas, Shuyuan Yao, John W. Phillips, Joshua S. Grimley, Boaz P. Levi, Yanling Wang, Sharad Ramanathan
Read MoreNature Neuroscience
Adult mouse cortical cell taxonomy revealed by single cell transcriptomics
Feb 01, 2016
Bosiljka Tasic, Vilas Menon, Thuc Nghi Nguyen, Tae Kyung Kim, Tim Jarsky, Zizhen Yao, Boaz Levi, Lucas T. Gray, Staci A. Sorensen, Tim Dolbeare, Darren Bertagnolli, Jeff Goldy, Nadiya Shapovalova, Sheana Parry, Changkyu Lee, Kimberly Smith, Amy Bernard, Linda Madisen, Susan M. Sunkin, Michael Hawrylycz, Christof Koch, Hongkui Zeng
Read MoreNature Methods
Fixed single-cell transcriptomic characterization of human radial glial diversity
Jan 01, 2016
Elliot R. Thomsen, John K. Mich, Zizhen Yao, Rebecca D. Hodge, Adele M. Doyle, Sumin Jang, Soraya I. Shehata, Angelique M. Nelson, Nadiya V. Shapovalova, Boaz P. Levi, Sharad Ramanathan
Read MoreNature Neuroscience
Canonical genetic signatures of the adult human brain
Dec 01, 2015
Michael Hawrylycz, Jeremy A. Miller, Vilas Menon, David Feng, Tim Dolbeare, Angela L. Guillozet-Bongaarts, Anil G. Jegga, Bruce J. Aronow, Chang-Kyu Lee, Amy Bernard, Matthew F. Glasser, Donna L. Dierker, Jörg Menche, Aaron Szafer, Forrest Collman, Pascal Grange, Kenneth A. Berman, Stefan Mihalas, Zizhen Yao, Lance Stewart, Albert-László Barabási, Jay Schulkin, John Phillips, Lydia Ng, Chinh Dang, David R. Haynor, Allan Jones, David C. Van Essen, Christof Koch, Ed Lein
Read MoreNucleic Acids Research
Genome engineering of isogenic human ES cells to model autism disorders
May 26, 2015
Refugio A. Martinez, Jason L. Stein, Anne-Rachel F. Krostag, Angelique M. Nelson, John S. Marken, Vilas Menon, Ryan C. May, Zizhen Yao, Ajamete Kaykas, Daniel H. Geschwind, Joshua S. Grimley
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