Additional materials of the author at
CSHL Institutional Repository

Huilgol, Dhananjay, Levine, Jesse M, Galbavy, William, Wang, Bor-Shuen, He, Miao, Suryanarayana, Shreyas M , Huang, Z Josh (2023) Direct and indirect neurogenesis generate a mosaic of distinct glutamatergic projection neuron types in cerebral cortex. Neuron, 111(16) pp. 2557-2569.e4.

Huilgol, Dhananjay, Russ, Jeffrey B, Srivas, Sweta , Huang, Z Josh (2023) The progenitor basis of cortical projection neuron diversity. Current Opinion in Neurobiology, 81 pp. 102726.

Yao, M, Tudi, A, Jiang, T, An, X, Sun, Q, Li, A, Huang, ZJ, Gong, H , Li, X (2023) Long-range connectome of pyramidal neurons in the sensorimotor cortex. iScience, 26(4) pp. 106316-106316.

Liu, Hao, Caballero-Florán, René N, Hergenreder, Ty, Yang, Tao, Hull, Jacob M, Pan, Geng, Li, Ruonan, Veling, Macy W, Isom, Lori L, Kwan, Kenneth Y, Huang, Z Josh, Fuerst, Peter G, Jenkins, Paul M , Ye, Bing (2023) DSCAM gene triplication causes excessive GABAergic synapses in the neocortex in Down syndrome mouse models. Kim, Eunjoon (Ed.). PLoS Biology, 21(4) pp. e3002078.

Boato, Francesco, Guan, Xiaofei, Zhu, Yanjie, Ryu, Youngjae, Voutounou, Mariel, Rynne, Christopher, Freschlin, Chase R, Zumbo, Paul, Betel, Doron, Matho, Katie, Makarov, Sergey N, Wu, Zhuhao, Son, Young-Jin, Nummenmaa, Aapo, Huang, Josh Z, Edwards, Dylan J , Zhong, Jian (2023) Activation of MAP2K signaling by genetic engineering or HF-rTMS promotes corticospinal axon sprouting and functional regeneration. Science Translational Medicine, 15(677) pp. eabq6885.

Qian, Yongjun, Li, Jiayun, Zhao, Shengli, Matthews, Elizabeth A, Adoff, Michael, Zhong, Weixin, An, Xu, Yeo, Michele, Park, Christine, Yang, Xiaolu, Wang, Bor-Shuen, Southwell, Derek G , Huang, Z Josh (2022) Programmable RNA sensing for cell monitoring and manipulation. Nature,

Mohan, Hemanth, An, Xu, Kondo, Hideki, Zhao, Shengli, Matho, Katherine, Musall, Simon, Mitra, Partha , Huang, Z Josh (2022) Cortical glutamatergic projection neuron types contribute to distinct functional subnetworks. Research Square,

Huilgol, Dhananjay, Levine, Jesse, Galbavy, William, Wang, Bor-Shuen, He, Miao, Suryanarayana, Shreyas , Huang, Josh (2022) Direct and indirect neurogenesis generate a mosaic of distinct glutamatergic projection neuron types and cortical subnetworks. BioRxiv,

An, Xu, Matho, Katherine, Li, Yi, Mohan, Hemanth, Xu, Hermione, Whishaw, Ian, Kepecs, Adam , Huang, Josh (2022) A cortical circuit for orchestrating oromanual food manipulation. bioRxiv,

Matho, Katherine S, Huilgol, Dhananjay, Galbavy, William, He, Miao, Kim, Gukhan, An, Xu, Lu, Jiangteng, Wu, Priscilla, Di Bella, Daniela J, Shetty, Ashwin S, Palaniswamy, Ramesh, Hatfield, Joshua, Raudales, Ricardo, Narasimhan, Arun, Gamache, Eric, Levine, Jesse M, Tucciarone, Jason, Szelenyi, Eric, Harris, Julie A, Mitra, Partha P, Osten, Pavel, Arlotta, Paola , Huang, Z Josh (2021) Genetic dissection of the glutamatergic neuron system in cerebral cortex.. Nature, 598(7879) pp. 182-187.

Yao, Zizhen, Liu, Hanqing, Xie, Fangming, Fischer, Stephan, Adkins, Ricky S, Aldridge, Andrew I, Ament, Seth A, Bartlett, Anna, Behrens, M Margarita, Van den Berge, Koen, Bertagnolli, Darren, de Bézieux, Hector Roux, Biancalani, Tommaso, Booeshaghi, A Sina, Bravo, Héctor Corrada, Casper, Tamara, Colantuoni, Carlo, Crabtree, Jonathan, Creasy, Heather, Crichton, Kirsten, Crow, Megan, Dee, Nick, Dougherty, Elizabeth L, Doyle, Wayne I, Dudoit, Sandrine, Fang, Rongxin, Felix, Victor, Fong, Olivia, Giglio, Michelle, Goldy, Jeff, Hawrylycz, Mike, Herb, Brian R, Hertzano, Ronna, Hou, Xiaomeng, Hu, Qiwen, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, Li, Yang Eric, Lucero, Jacinta D, Luo, Chongyuan, Mahurkar, Anup, McMillen, Delissa, Nadaf, Naeem M, Nery, Joseph R, Nguyen, Thuc Nghi, Niu, Sheng-Yong, Ntranos, Vasilis, Orvis, Joshua, Osteen, Julia K, Pham, Thanh, Pinto-Duarte, Antonio, Poirion, Olivier, Preissl, Sebastian, Purdom, Elizabeth, Rimorin, Christine, Risso, Davide, Rivkin, Angeline C, Smith, Kimberly, Street, Kelly, Sulc, Josef, Svensson, Valentine, Tieu, Michael, Torkelson, Amy, Tung, Herman, Vaishnav, Eeshit Dhaval, Vanderburg, Charles R, van Velthoven, Cindy, Wang, Xinxin, White, Owen R, Huang, Z Josh, Kharchenko, Peter V, Pachter, Lior, Ngai, John, Regev, Aviv, Tasic, Bosiljka, Welch, Joshua D, Gillis, Jesse, Macosko, Evan Z, Ren, Bing, Ecker, Joseph R, Zeng, Hongkui , Mukamel, Eran A (2021) A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.. Nature, 598(7879) pp. 103-110.

Dudok, Barna, Szoboszlay, Miklos, Paul, Anirban, Klein, Peter M, Liao, Zhenrui, Hwaun, Ernie, Szabo, Gergely G, Geiller, Tristan, Vancura, Bert, Wang, Bor-Shuen, McKenzie, Sam, Homidan, Jesslyn, Klaver, Lianne MF, English, Daniel F, Huang, Z Josh, Buzsáki, György, Losonczy, Attila , Soltesz, Ivan (2021) Recruitment and inhibitory action of hippocampal axo-axonic cells during behavior.. Neuron,

BRAIN Initiative Cell Census Network (BICCN), (2021) A multimodal cell census and atlas of the mammalian primary motor cortex. Nature, 598(7879) pp. 86-102.

Muñoz-Castañeda, Rodrigo, Zingg, Brian, Matho, Katherine S, Chen, Xiaoyin, Wang, Quanxin, Foster, Nicholas N, Li, Anan, Narasimhan, Arun, Hirokawa, Karla E, Huo, Bingxing, Bannerjee, Samik, Korobkova, Laura, Park, Chris Sin, Park, Young-Gyun, Bienkowski, Michael S, Chon, Uree, Wheeler, Diek W, Li, Xiangning, Wang, Yun, Naeemi, Maitham, Xie, Peng, Liu, Lijuan, Kelly, Kathleen, An, Xu, Attili, Sarojini M, Bowman, Ian, Bludova, Anastasiia, Cetin, Ali, Ding, Liya, Drewes, Rhonda, D'Orazi, Florence, Elowsky, Corey, Fischer, Stephan, Galbavy, William, Gao, Lei, Gillis, Jesse, Groblewski, Peter A, Gou, Lin, Hahn, Joel D, Hatfield, Joshua T, Hintiryan, Houri, Huang, Junxiang Jason, Kondo, Hideki, Kuang, Xiuli, Lesnar, Philip, Li, Xu, Li, Yaoyao, Lin, Mengkuan, Lo, Darrick, Mizrachi, Judith, Mok, Stephanie, Nicovich, Philip R, Palaniswamy, Ramesh, Palmer, Jason, Qi, Xiaoli, Shen, Elise, Sun, Yu-Chi, Tao, Huizhong W, Wakemen, Wayne, Wang, Yimin, Yao, Shenqin, Yuan, Jing, Zhan, Huiqing, Zhu, Muye, Ng, Lydia, Zhang, Li I, Lim, Byung Kook, Hawrylycz, Michael, Gong, Hui, Gee, James C, Kim, Yongsoo, Chung, Kwanghun, Yang, X William, Peng, Hanchuan, Luo, Qingming, Mitra, Partha P, Zador, Anthony M, Zeng, Hongkui, Ascoli, Giorgio A, Josh Huang, Z, Osten, Pavel, Harris, Julie A , Dong, Hong-Wei (2021) Cellular anatomy of the mouse primary motor cortex.. Nature, 598(7879) pp. 159-166.

Peng, Hanchuan, Xie, Peng, Liu, Lijuan, Kuang, Xiuli, Wang, Yimin, Qu, Lei, Gong, Hui, Jiang, Shengdian, Li, Anan, Ruan, Zongcai, Ding, Liya, Yao, Zizhen, Chen, Chao, Chen, Mengya, Daigle, Tanya L, Dalley, Rachel, Ding, Zhangcan, Duan, Yanjun, Feiner, Aaron, He, Ping, Hill, Chris, Hirokawa, Karla E, Hong, Guodong, Huang, Lei, Kebede, Sara, Kuo, Hsien-Chi, Larsen, Rachael, Lesnar, Phil, Li, Longfei, Li, Qi, Li, Xiangning, Li, Yaoyao, Li, Yuanyuan, Liu, An, Lu, Donghuan, Mok, Stephanie, Ng, Lydia, Nguyen, Thuc Nghi, Ouyang, Qiang, Pan, Jintao, Shen, Elise, Song, Yuanyuan, Sunkin, Susan M, Tasic, Bosiljka, Veldman, Matthew B, Wakeman, Wayne, Wan, Wan, Wang, Peng, Wang, Quanxin, Wang, Tao, Wang, Yaping, Xiong, Feng, Xiong, Wei, Xu, Wenjie, Ye, Min, Yin, Lulu, Yu, Yang, Yuan, Jia, Yuan, Jing, Yun, Zhixi, Zeng, Shaoqun, Zhang, Shichen, Zhao, Sujun, Zhao, Zijun, Zhou, Zhi, Huang, Z Josh, Esposito, Luke, Hawrylycz, Michael J, Sorensen, Staci A, Yang, X William, Zheng, Yefeng, Gu, Zhongze, Xie, Wei, Koch, Christof, Luo, Qingming, Harris, Julie A, Wang, Yun , Zeng, Hongkui (2021) Morphological diversity of single neurons in molecularly defined cell types.. Nature, 598(7879) pp. 174-181.

Yang, Yang, Paul, Anirban, Bach, Thao Nguyen, Huang, Z Josh , Zhang, Michael Q (2021) Single-cell alternative polyadenylation analysis delineates GABAergic neuron types.. BMC Biology, 19(1) pp. 144.

Wang, Bor-Shuen, Bernardez Sarria, Maria Sol, An, Xu, He, Miao, Alam, Nazia M, Prusky, Glen T, Crair, Michael C , Huang, Z Josh (2021) Retinal and Callosal Activity-Dependent Chandelier Cell Elimination Shapes Binocularity in Primary Visual Cortex.. Neuron, 109(3) pp. 502-515.e7.

BRAIN Initiative Cell Census Network (BICCN), , Adkins, Ricky, Aldridge, Andrew, Allen, Shona, Ament, Seth, An, Xu, Armand, Ethan, Ascoli, Giorgio, Bakken, Trygve, Bandrowski, Anita, Banerjee, Samik, Barkas, Nikolaos, Bartlett, Anna, Bateup, Helen, Behrens, Margarita, Berens, Philipp, Berg, Jim, Bernabucci, Matteo, Bernaerts, Yves, Bertagnolli, Darren, Biancalani, Tommaso, Boggeman, Lara, Booeshaghi, Sina, Bowman, Ian, Bravo, Héctor Corrada, Cadwell, Cathryn René, Callaway, Edward, Carlin, Benjamin, O'Connor, Carolyn, Carter, Robert, Casper, Tamara, Castanon, Rosa, Castro, Jesus Ramon, Chance, Rebecca, Chatterjee, Apaala, Chen, Huaming, Chun, Jerold, Colantuoni, Carlo, Crabtree, Jonathan, Creasy, Heather, Crichton, Kirsten, Crow, Megan, D'Orazi, Florence, Daigle, Tanya, Dalley, Rachel, Dee, Nick, Degatano, Kylee, Dichter, Benjamin, Diep, Dinh, Ding, Liya, Ding, Song-Lin, Dominguez, Bertha, Dong, Hong-Wei, Dong, Weixiu, Dougherty, Elizabeth, Dudoit, Sandrine, Ecker, Joseph, Eichhorn, Stephen, Fang, Rongxin, Felix, Victor, Feng, Guoping, Feng, Zhao, Fischer, Stephan, Fitzpatrick, Conor, Fong, Olivia, Foster, Nicholas, Galbavy, William, Gee, James, Ghosh, Satrajit, Giglio, Michelle, Gillespie, Thomas, Gillis, Jesse, Goldman, Melissa, Goldy, Jeff, Gong, Hui, Gou, Lin, Grauer, Michael, Halchenko, Yaroslav, Harris, Julie, Hartmanis, Leonard, Hatfield, Joshua, Hawrylycz, Mike, Helba, Brian, Herb, Brian, Hertzano, Ronna, Hintiryan, Houri, Hirokawa, Karla, Hockemeyer, Dirk, Hodge, Rebecca, Hood, Greg, Horwitz, Gregory, Hou, Xiaomeng, Hu, Lijuan, Hu, Qiwen, Huang, Josh, Huo, Bingxing, Ito-Cole, Tony, Jacobs, Matthew, Jia, Xueyan, Jiang, Shengdian, Jiang, Tao, Jiang, Xiaolong, Jin, Xin, Jorstad, Nikolas, Kalmbach, Brian, Kancherla, Jayaram, Keene, Dirk, Kelly, Kathleen, Khajouei, Farzaneh, Kharchenko, Peter, Kim, Gukhan, Ko, Andrew, Kobak, Dmitry, Konwar, Kishori, Kramer, Daniel, Krienen, Fenna, Kroll, Matthew, Kuang, Xiuli, Kuo, Hsien-Chi, Lake, Blue, Larsen, Rachael, Lathia, Kanan, Laturnus, Sophie, Lee, Angus, Lee, Cheng-Ta, Lee, Kuo-Fen, Lein, Ed, Lesnar, Phil, Li, Anan, Li, Xiangning, Li, Xu, Li, Yang Eric, Li, Yaoyao, Li, Yuanyuan, Lim, Byungkook, Linnarsson, Sten, Liu, Christine, Liu, Hanqing, Liu, Lijuan, Lucero, Jacinta, Luo, Chongyuan, Luo, Qingming, Macosko, Evan, Mahurkar, Anup, Martone, Maryann, Matho, Katherine, McCarroll, Steven, McCracken, Carrie, McMillen, Delissa, Miranda, Elanine, Mitra, Partha, Miyazaki, Paula Assakura, Mizrachi, Judith, Mok, Stephanie, Mukamel, Eran, Mulherkar, Shalaka, Nadaf, Naeem, Naeemi, Maitham, Narasimhan, Arun, Nery, Joseph, Ng, Lydia, Ngai, John, Nguyen, Thuc Nghi, Nickel, Lance, Nicovich, Philip, Niu, Sheng-Yong, Ntranos, Vasilis, Nunn, Michael, Olley, Dustin, Orvis, Joshua, Osteen, Julia, Osten, Pavel, Owen, Scott, Pachter, Lior, Palaniswamy, Ramesh, Palmer, Carter, Pang, Yan, Peng, Hanchuan, Pham, Thanh, Pinto-Duarte, Antonio, Plongthongkum, Nongluk, Poirion, Olivier, Preissl, Sebastian, Purdom, Elizabeth, Qu, Lei, Rashid, Mohammad, Reed, Nora, Regev, Aviv, Ren, Bing, Ren, Miao, Rimorin, Christine, Risso, Davide, Rivkin, Angeline, Muñoz-Castañeda, Rodrigo, Romanow, William, Ropelewski, Alexander, Roux de Bézieux, Hector, Ruan, Zongcai, Sandberg, Rickard, Savoia, Steven, Scala, Federico, Schor, Michael, Shen, Elise, Siletti, Kimberly, Smith, Jared, Smith, Kimberly, Somasundaram, Saroja, Song, Yuanyuan, Sorensen, Staci, Stafford, David, Street, Kelly, Sulc, Josef, Sunkin, Susan, Svensson, Valentine, Tan, Pengcheng, Tan, Zheng Huan, Tasic, Bosiljka, Thompson, Carol, Tian, Wei, Tickle, Timothy, Tieu, Michael, Ting, Jonathan, Tolias, Andreas Savas, Torkelson, Amy, Tung, Herman, Vaishnav, Eeshit Dhaval, Van den Berge, Koen, van Velthoven, Cindy TJ, Vanderburg, Charles, Veldman, Matthew, Vu, Minh, Wakeman, Wayne, Wang, Peng, Wang, Quanxin, Wang, Xinxin, Wang, Yimin, Wang, Yun, Welch, Joshua, White, Owen, Williams, Elora, Xie, Fangming, Xie, Peng, Xiong, Feng, Yang, William, Yanny, Anna Marie, Yao, Zizhen, Yin, Lulu, Yu, Yang, Yuan, Jing , Z, Hongkui (2020) A multimodal cell census and atlas of the mammalian primary motor cortex. BioRxiv,

Muñoz-Castañeda, Rodrigo, Zingg, Brian, Matho, Katherine, Wang, Quanxin, Chen, Xiaoyin, Foster, Nicholas, Narasimhan, Arun, Li, Anan, Hirokawa, Karla, Huo, Bingxing, Bannerjee, Samik, Korobkova, Laura, Park, Chris Sin, Park, Young-Gyun, Bienkowski, Michael, Chon, Uree, Wheeler, Diek, Li, Xiangning, Wang, Yun, Kelly, Kathleen, An, Xu, Attili, Sarojini, Bowman, Ian, Bludova, Anastasiia, Cetin, Ali, Ding, Liya, Drewes, Rhonda, D’Orazi, Florence, Elowsky, Corey, Fischer, Stephan, Galbavy, William, Gao, Lei, Gillis, Jesse, Groblewski, Peter, Gou, Lin, Hahn, Joel, Hatfield, Joshua, Hintiryan, Houri, Huang, Jason, Kondo, Hideki, Kuang, Xiuli, Lesnar, Philip, Li, Xu, Li, Yaoyao, Lin, Mengkuan, Liu, Lijuan, Lo, Darrick, Mizrachi, Judith, Mok, Stephanie, Naeemi, Maitham, Nicovich, Philip, Palaniswamy, Ramesh, Palmer, Jason, Qi, Xiaoli, Shen, Elise, Sun, Yu-Chi, Tao, Huizhong, Wakemen, Wayne, Wang, Yimin, Xie, Peng, Yao, Shenqin, Yuan, Jin, Zhu, Muye, Ng, Lydia, Zhang, Li, Lim, Byung Kook, Hawrylycz, Michael, Gong, Hui, Gee, James, Kim, Yongsoo, Peng, Hanchuan, Chuang, Kwanghun, Yang, William, Luo, Qingming, Mitra, Partha, Zador, Anthony, Zeng, Hongkui, Ascoli, Giorgio, Huang, Josh, Osten, Pavel, Harris, Julie , Dong, Hong-Wei (2020) Cellular Anatomy of the Mouse Primary Motor Cortex. BioRxiv,

Xiao, X., Deng, H., Furlan, A., Yang, T., Zhang, X., Hwang, G. R., Tucciarone, J., Wu, P., He, M., Palaniswamy, R., Ramakrishnan, C., Ritola, K., Hantman, A., Deisseroth, K., Osten, P., Huang, Z. J. , Li, B. (2020) A Genetically Defined Compartmentalized Striatal Direct Pathway for Negative Reinforcement. Cell, 183(1) pp. 211-227.e20.

Banerjee, Samik, Magee, Lucas, Wang, Dingkang, Li, Xu, Huo, Bing-Xing, Jayakumar, Jaikishan, Matho, Katherine, Lin, Meng-Kuan, Ram, Keerthi, Sivaprakasam, Mohanasankar, Huang, Josh, Wang, Yusu , Mitra, Partha P (2020) Semantic segmentation of microscopic neuroanatomical data by combining topological priors with encoder-decoder deep networks. Nature Machine Intelligence, 2(10) pp. 585-+.

Yuste, R., Hawrylycz, M., Aalling, N., Aguilar-Valles, A., Arendt, D., Arnedillo, R. A., Ascoli, G. A., Bielza, C., Bokharaie, V., Bergmann, T. B., Bystron, I., Capogna, M., Chang, Y., Clemens, A., de Kock, C. P. J., DeFelipe, J., Dos Santos, S. E., Dunville, K., Feldmeyer, D., Fiáth, R., Fishell, G. J., Foggetti, A., Gao, X., Ghaderi, P., Goriounova, N. A., Güntürkün, O., Hagihara, K., Hall, V. J., Helmstaedter, M., Herculano, S., Hilscher, M. M., Hirase, H., Hjerling-Leffler, J., Hodge, R., Huang, J., Huda, R., Khodosevich, K., Kiehn, O., Koch, H., Kuebler, E. S., Kühnemund, M., Larrañaga, P., Lelieveldt, B., Louth, E. L., Lui, J. H., Mansvelder, H. D., Marin, O., Martinez-Trujillo, J., Moradi Chameh, H., Nath, A., Nedergaard, M., Němec, P., Ofer, N., Pfisterer, U. G., Pontes, S., Redmond, W., Rossier, J., Sanes, J. R., Scheuermann, R., Serrano-Saiz, E., Steiger, J. F., Somogyi, P., Tamás, G., Tolias, A. S., Tosches, M. A., García, M. T., Vieira, H. M., Wozny, C., Wuttke, T. V., Yong, L., Yuan, J., Zeng, H. , Lein, E. (2020) A community-based transcriptomics classification and nomenclature of neocortical cell types. Nat Neurosci, 23(12) pp. 1456-1468.

Lau, B. Y. B., Krishnan, K., Huang, Z. J. , Shea, S. D. (2020) Maternal experience-dependent cortical plasticity in mice is circuit- and stimulus-specific and requires MECP2. J Neurosci, 40(7) pp. 1514-1526.

Chen, X., Sun, Y. C., Zhan, H., Kebschull, J. M., Fischer, S., Matho, K., Huang, Z. J., Gillis, J. , Zador, A. M. (2019) High-Throughput Mapping of Long-Range Neuronal Projection Using In Situ Sequencing. Cell, 179(3) pp. 772-786.e19.

Chen, Xiaoyin, Sun, Yu-Chi, Zhan, Huiqing, Kebschull, Justus, Fischer, Stephan, Matho, Katherine, Josh Huang, Z, Gillis, Jesse , Zador, Anthony (2019) High-throughput mapping of long-range neuronal projection using in situ sequencing. BioRxiv,

Huang, Z. J. , Paul, A. (2019) The diversity of GABAergic neurons and neural communication elements. Nat Rev Neurosci, 29(9) pp. 563-572.

Lau, Billy, Krishnan, Keerthi, Huang, Josh , Shea, Stephen (2019) Maternal experience-dependent cortical plasticity in mice is circuit- and stimulus-specific and requires MECP2. BioRxiv,

Wang, X., Tucciarone, J., Jiang, S., Yin, F., Wang, B. S., Wang, D., Jia, Y., Jia, X., Li, Y., Yang, T., Xu, Z., Akram, M. A., Wang, Y., Zeng, S., Ascoli, G. A., Mitra, P., Gong, H., Luo, Q. , Huang, Z. J. (2019) Genetic Single Neuron Anatomy Reveals Fine Granularity of Cortical Axo-Axonic Cells. Cell Rep, 26(11) pp. 3145-3159.e5.

Paul, A. , Huang, Z. J. (2018) Single-cell RNA Sequencing of Fluorescently Labeled Mouse Neurons Using Manual Sorting and Double In Vitro Transcription with Absolute Counts Sequencing (DIVA-Seq). J Vis Exp, (140)

Kelly, Sean M., Raudales, Ricardo, He, Miao, Lee, Jannifer H., Kim, Yongsoo, Gibb, Leif G., Wu, Priscilla, Matho, Katherine, Osten, Pavel, Graybiel, Ann M. , Huang, Z. Josh (2018) Radial Glial Lineage Progression and Differential Intermediate Progenitor Amplification Underlie Striatal Compartments and Circuit Organization. Neuron, 99(2) pp. 345-361.

Crow, M., Paul, A., Ballouz, S., Huang, Z. J. , Gillis, J. (2018) Characterizing the replicability of cell types defined by single cell RNA-sequencing data using MetaNeighbor. Nat Commun, 9(1) pp. 884.

He, M. , Huang, Z. J. (2018) Genetic approaches to access cell types in mammalian nervous systems. Curr Opin Neurobiol, 50 pp. 109-118.

Crow, M., Paul, A., Huang, J. , Gillis, J. (2017) USING SINGLE CELL RNA-SEQ TO EXPLORE CELL-TYPE SPECIFIC CO-EXPRESSION OF NEUROPSYCHIATRIC DISEASE GENES. European Neuropsychopharmacology, 27 pp. abstract S350-S350.

Lu, J., Tucciarone, J., Padilla-Coreano, N., He, M., Gordon, J. A. , Huang, Z. J. (2017) Selective inhibitory control of pyramidal neuron ensembles and cortical subnetworks by chandelier cells. Nat Neurosci, 20(10) pp. 1377-1383.

Vogt, D., Cho, K. K. A., Shelton, S. M., Paul, A., Huang, Z. J., Sohal, V. S. , Rubenstein, J. L. R. (2017) Mouse Cntnap2 and Human CNTNAP2 ASD Alleles Cell Autonomously Regulate PV+ Cortical Interneurons. Cereb Cortex, 28(11) pp. 3868-3879.

Krishnan, K., Lau, B. Y., Ewall, G., Huang, Z. J. , Shea, S. D. (2017) MECP2 regulates cortical plasticity underlying a learned behaviour in adult female mice. Nat Commun, 8 pp. 14077.

Kim, Yongsoo, Yang, Guangyu Robert, Pradhan, Kith, Venkataraju, Kannan Umadevi, Bota, Mihail, García del Molino, Luis Carlos, Fitzgerald, Greg, Ram, Keerthi, He, Miao, Levine, Jesse Maurica, Mitra, Partha, Huang, Z. Josh, Wang, Xiao-Jing , Osten, Pavel (2017) Brain-wide Maps Reveal Stereotyped Cell-Type-Based Cortical Architecture and Subcortical Sexual Dimorphism. Cell, 171(2) pp. 456-469.e22.

Paul, A., Crow, M., Raudales, R., He, M., Gillis, J. , Huang, Z. J. (2017) Transcriptional Architecture of Synaptic Communication Delineates GABAergic Neuron Identity. Cell,

He, M., Tucciarone, J., Lee, S., Nigro, M. J., Kim, Y., Levine, J. M., Kelly, S. M., Krugikov, I., Wu, P., Chen, Y., Gong, L., Hou, Y., Osten, P., Rudy, B. , Huang, Z. J. (2016) Strategies and Tools for Combinatorial Targeting of GABAergic Neurons in Mouse Cerebral Cortex. Neuron, 91(6) pp. 1228-1243.

Crow, M., Paul, A., Ballouz, S., Huang, Z. J. , Gillis, J. (2016) Exploiting single-cell expression to characterize co-expression replicability. Genome Biol, 17(1) pp. 101.

Wall, N. R., De La Parra, M., Sorokin, J. M., Taniguchi, H., Huang, Z. J. , Callaway, E. M. (2016) Brain-Wide Maps of Synaptic Input to Cortical Interneurons. J Neurosci, 36(14) pp. 4000-9.

Krishnan, Keerthi, Lau, Billy, Ewall, Gabrielle, Huang, Josh , Shea, Stephen David (2016) MECP2 regulates cortical plasticity underlying a learned behavior in adult female mice. BioRxiv,

Huang, Z. J. , Luo, L. (2015) NEUROSCIENCE. It takes the world to understand the brain. Science, 350(6256) pp. 42-4.

Miyoshi, G., Young, A., Petros, T., Karayannis, T., McKenzie Chang, M., Lavado, A., Iwano, T., Nakajima, M., Taniguchi, H., Huang, Z. J., Heintz, N., Oliver, G., Matsuzaki, F., Machold, R. P. , Fishell, G. (2015) Prox1 Regulates the Subtype-Specific Development of Caudal Ganglionic Eminence-Derived GABAergic Cortical Interneurons. J Neurosci, 35(37) pp. 12869-89.

Krishnan, K., Wang, B. S., Lu, J., Wang, L., Maffei, A., Cang, J. , Huang, Z. J. (2015) MeCP2 regulates the timing of critical period plasticity that shapes functional connectivity in primary visual cortex. Proc Natl Acad Sci U S A, 112(34) pp. E4782-E4791.

Mesik, L., Ma, W. P., Li, L. Y., Ibrahim, L. A., Huang, Z. J., Zhang, L. I. , Tao, H. W. (2015) Functional response properties of VIP-expressing inhibitory neurons in mouse visual and auditory cortex. Front Neural Circuits, 9 pp. 22.

Lazarus, M. S., Krishnan, K. , Huang, Z. J. (2015) GAD67 Deficiency in Parvalbumin Interneurons Produces Deficits in Inhibitory Transmission and Network Disinhibition in Mouse Prefrontal Cortex. Cerebral Cortex, 25(5) pp. 1290-1296.

Delevich, K., Tucciarone, J., Huang, Z. J. , Li, B. (2015) The Mediodorsal Thalamus Drives Feedforward Inhibition in the Anterior Cingulate Cortex via Parvalbumin Interneurons. Journal of Neuroscience , 35(14) pp. 5743-53.

Penzo, M. A., Robert, V., Tucciarone, J., De Bundel, D., Wang, M., Van Aelst, L., Darvas, M., Parada, L. F., Palmiter, R. D., He, M., Huang, Z. J. , Li, B. (2015) The paraventricular thalamus controls a central amygdala fear circuit. Nature, 519(7544) pp. 455-459.

Ahrens, S., Jaramillo, S., Yu, K., Ghosh, S., Hwang, G., Paik, R., Lai, C., He, M., Huang, Z. J. , Li, B. (2015) ErbB4 regulation of a thalamic reticular nucleus circuit for sensory selection. Nature Neuroscience, 18 pp. 104-111.

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Huang, Z. J. (2014) Toward a Genetic Dissection of Cortical Circuits in the Mouse. Neuron, 83(6) pp. 1284-1302.

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