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publication / 2018
Large-scale neuroanatomy using LASSO: Loop-based Automated Serial Sectioning Operation
PloS One
Brain Science
MindScope

Timothy J. Lee, Aditi Kumar, Aishwarya H. Balwani, Derrick Brittain, Sam Kinn, Craig A. Tovey, Eva L. Dyer, Nuno M. da Costa, R. Clay Reid, Craig R. Forest, Daniel J. Bumbarger

publication / 2018
Neuromodulatory Correlates of Pupil Dilation
Frontiers in Neural Circuits
Brain Science
MindScope

Rylan S. Larsen, Jack Waters

publication / 2018
Single-nucleus and single-cell transcriptomes compared in matched cortical cell types
PloS One
Brain Science
MindScope

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

preprint / 2017
Building a 3D Integrated Cell
Cell Science

Gregory R. Johnson, Rory M. Donovan-Maiye, Mary M. Maleckar

publication / 2017
Cell type discovery and representation in the era of high-content single cell phenotyping
BMC bioinformatics
Brain Science
MindScope

Trygve Bakken, Lindsay Cowell, Brian D. Aevermann, Mark Novotny, Rebecca Hodge, Jeremy A. Miller, Alexandra Lee, Ivan Chang, Jamison McCorrison, Bali Pulendran, Yu Qian, Nicholas J. Schork, Roger S. Lasken, Ed S. Lein, Richard H. Scheuermann

publication / 2017
The Human Cell Atlas
eLife
Brain Science
MindScope

Aviv Regev, Sarah A. Teichmann, Eric S. Lander, Ido Amit, Christophe Benoist, Ewan Birney, Bernd Bodenmiller, Peter Campbell, Piero Carninci, Menna Clatworthy, Hans Clevers, Bart Deplancke, Ian Dunham, James Eberwine, Roland Eils, Wolfgang Enard, Andrew Farmer, Lars Fugger, Berthold Göttgens, Nir Hacohen, Muzlifah Haniffa, Martin Hemberg, Seung Kim, Paul Klenerman, Arnold Kriegstein, Ed Lein, Sten Linnarsson, Emma Lundberg, Joakim Lundeberg, Partha Majumder, John C. Marioni, Miriam Merad, Musa Mhlanga, Martijn Nawijn, Mihai Netea, Garry Nolan, Dana Pe'er, Anthony Phillipakis, Chris P. Ponting, Stephen Quake, Wolf Reik, Orit Rozenblatt-Rosen, Joshua Sanes, Rahul Satija, Ton N. Schumacher, Alex Shalek, Ehud Shapiro, Padmanee Sharma, Jay W. Shin, Oliver Stegle, Michael Stratton, Michael J. T. Stubbington, Fabian J. Theis, Matthias Uhlen, Alexander van Oudenaarden, Allon Wagner, Fiona Watt, Jonathan Weissman, Barbara Wold, Ramnik Xavier, Nir Yosef, Human Cell Atlas Meeting Participants

publication / 2017
Combinatorial Inputs to the Ventral Striatum from the Temporal Cortex, Frontal Cortex, and Amygdala: Implications for Segmenting the Striatum
eNeuro
Brain Science
MindScope

Eun Young Choi, Song-Lin Ding, Suzanne N. Haber

publication / 2017
Discover mouse gene coexpression landscapes using dictionary learning and sparse coding
Brain Structure & Function
Brain Science
MindScope

Yujie Li, Hanbo Chen, Xi Jiang, Xiang Li, Jinglei Lv, Hanchuan Peng, Joe Z. Tsien, Tianming Liu

publication / 2017
STRT-seq-2i: dual-index 5' single cell and nucleus RNA-seq on an addressable microwell array
Scientific Reports
Brain Science
MindScope

Hannah Hochgerner, Peter Lönnerberg, Rebecca Hodge, Jaromir Mikes, Abeer Heskol, Hermann Hubschle, Philip Lin, Simone Picelli, Gioele La Manno, Michael Ratz, Jude Dunne, Syed Husain, Ed Lein, Maithreyan Srinivasan, Amit Zeisel, Sten Linnarsson

publication / 2017
Molecular and cellular reorganization of neural circuits in the human lineage
Science (New York, N.Y.)
Brain Science
MindScope

André M. M. Sousa, Ying Zhu, Mary Ann Raghanti, Robert R. Kitchen, Marco Onorati, Andrew T. N. Tebbenkamp, Bernardo Stutz, Kyle A. Meyer, Mingfeng Li, Yuka Imamura Kawasawa, Fuchen Liu, Raquel Garcia Perez, Marta Mele, Tiago Carvalho, Mario Skarica, Forrest O. Gulden, Mihovil Pletikos, Akemi Shibata, Alexa R. Stephenson, Melissa K. Edler, John J. Ely, John D. Elsworth, Tamas L. Horvath, Patrick R. Hof, Thomas M. Hyde, Joel E. Kleinman, Daniel R. Weinberger, Mark Reimers, Richard P. Lifton, Shrikant M. Mane, James P. Noonan, Matthew W. State, Ed S. Lein, James A. Knowles, Tomas Marques-Bonet, Chet C. Sherwood, Mark B. Gerstein, Nenad Sestan

publication / 2017
Capture of Dense Core Vesicles at Synapses by JNK-Dependent Phosphorylation of Synaptotagmin-4
Cell Reports
Brain Science
MindScope

Vinita Bharat, Michael Siebrecht, Katja Burk, Saheeb Ahmed, Carsten Reissner, Mahdokht Kohansal-Nodehi, Vicky Steubler, Markus Zweckstetter, Jonathan T. Ting, Camin Dean

publication / 2017
Neuropathological and transcriptomic characteristics of the aged brain
eLife
Brain Science
MindScope

Jeremy A. Miller, Angela Guillozet-Bongaarts, Laura E. Gibbons, Nadia Postupna, Anne Renz, Allison E. Beller, Susan M. Sunkin, Lydia Ng, Shannon E. Rose, Kimberly A. Smith, Aaron Szafer, Chris Barber, Darren Bertagnolli, Kristopher Bickley, Krissy Brouner, Shiella Caldejon, Mike Chapin, Mindy L. Chua, Natalie M. Coleman, Eiron Cudaback, Christine Cuhaciyan, Rachel A. Dalley, Nick Dee, Tsega Desta, Tim A. Dolbeare, Nadezhda I. Dotson, Michael Fisher, Nathalie Gaudreault, Garrett Gee, Terri L. Gilbert, Jeff Goldy, Fiona Griffin, Caroline Habel, Zeb Haradon, Nika Hejazinia, Leanne L. Hellstern, Steve Horvath, Kim Howard, Robert Howard, Justin Johal, Nikolas L. Jorstad, Samuel R. Josephsen, Chihchau L. Kuan, Florence Lai, Eric Lee, Felix Lee, Tracy Lemon, Xianwu Li, Desiree A. Marshall, Jose Melchor, Shubhabrata Mukherjee, Julie Nyhus, Julie Pendergraft, Lydia Potekhina, Elizabeth Y. Rha, Samantha Rice, David Rosen, Abharika Sapru, Aimee Schantz, Elaine Shen, Emily Sherfield, Shu Shi, Andy J. Sodt, Nivretta Thatra, Michael Tieu, Angela M. Wilson, Thomas J. Montine, Eric B. Larson, Amy Bernard, Paul K. Crane, Richard G. Ellenbogen, C. Dirk Keene, Ed Lein

preprint / 2017
Three dimensional cross-modal image inference: label-free methods for subcellular structure prediction
Cell Science

Chek Ounkomol, Daniel A. Fernandes, Sharmishtaa Seshamani, Mary M. Maleckar, Forrest Collman, Gregory R. Johnson

publication / 2017
Fully integrated silicon probes for high-density recording of neural activity
Nature
Brain Science
MindScope

James J. Jun, Nicholas A. Steinmetz, Joshua H. Siegle, Daniel J. Denman, Marius Bauza, Brian Barbarits, Albert K. Lee, Costas A. Anastassiou, Alexandru Andrei, Çağatay Aydın, Mladen Barbic, Timothy J. Blanche, Vincent Bonin, João Couto, Barundeb Dutta, Sergey L. Gratiy, Diego A. Gutnisky, Michael Häusser, Bill Karsh, Peter Ledochowitsch, Carolina Mora Lopez, Catalin Mitelut, Silke Musa, Michael Okun, Marius Pachitariu, Jan Putzeys, P. Dylan Rich, Cyrille Rossant, Wei-Lung Sun, Karel Svoboda, Matteo Carandini, Kenneth D. Harris, Christof Koch, John O'Keefe, Timothy D. Harris

publication / 2017
New Breakthroughs in Understanding the Role of Functional Interactions between the Neocortex and the Claustrum
The Journal of Neuroscience: The Official Journal of the Society for Neuroscience
Brain Science
MindScope

Solange P. Brown, Brian N. Mathur, Shawn R. Olsen, Pierre-Hervé Luppi, Martha E. Bickford, Ami Citri

publication / 2017
The BRAIN Initiative Cell Census Consortium: Lessons Learned toward Generating a Comprehensive Brain Cell Atlas
Neuron
Brain Science
MindScope

Joseph R. Ecker, Daniel H. Geschwind, Arnold R. Kriegstein, John Ngai, Pavel Osten, Damon Polioudakis, Aviv Regev, Nenad Sestan, Ian R. Wickersham, Hongkui Zeng

publication / 2017
Light deprivation produces distinct morphological orchestrations on RGCs and cortical cells in a depressive-like YFP-H mouse model
Neuroscience Letters
Brain Science
MindScope

Chanyi Lu, Qi-Qin Li, Yao-Yao Li, Hua-Zhen Lin, Jia Qu, Yun Wang, Yun-Feng Zhang

publication / 2017
Systematic gene tagging using CRISPR/Cas9 in human stem cells to illuminate cell organization
Molecular Biology of the Cell
Cell Science

Brock Roberts, Amanda Haupt, Andrew Tucker, Tanya Grancharova, Joy Arakaki, Margaret A. Fuqua, Angelique Nelson, Caroline Hookway, Susan A. Ludmann, Irina A. Mueller, Ruian Yang, Rick Horwitz, Susanne M. Rafelski, Ruwanthi N. Gunawardane

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