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publication / 2025
Spontaneous pathology in PS19 tauopathy mice progresses via brain networks
Neurobiology of Disease
Brain Science
MindScope

Denise M. O. Ramirez, Jennifer D. Whitesell, Nikhil Bhagwat, Talitha L. Thomas, Apoorva D. Ajay, Ariana Nawaby, Benoît Delatour, Sylvie Bay, Pierre LaFaye, Julie A. Harris, Julian P. Meeks, Marc I. Diamond

10.1016/j.nbd.2025.107072
Brain Science
publication / 2025
Data-driven fine-grained region discovery in the mouse brain with transformers
Nature Communications
Brain Science
MindScope

Alex J. Lee, Alma Dubuc, Michael Kunst, Shenqin Yao, Nicholas Lusk, Lydia Ng, Hongkui Zeng, Bosiljka Tasic, Reza Abbasi-Asl

10.1038/s41467-025-64259-4
Brain Science
preprint / 2025
Exploring the correspondence between gene expression and thalamic nuclei using the THALMANAC resource
bioRxiv
Neural Dynamics

Meghan A. Turner, Thomas Chartrand, Mathew T. Summers, Marcus Hooper, Cindy van Velthoven, Jack Waters, Saskia de Vries, Hongkui Zeng, Bosiljka Tasic, Karel Svoboda, Brian Long

10.1101/2025.09.30.679413
Neural Dynamics
publication / 2025
What makes the human brain special: from cellular function to clinical translation
Journal of Neurophysiology
Brain Science
MindScope

Karen M. J. van Loo, Aniella Bak, Rebecca Hodge, Francesco Bedogni, Julian S. B. Ramirez, Samuel N. Emerson, Anke Höllig, Huibert D. Mansvelder, Natalia A. Goriounova, Jan-Marino Ramirez, Henner Koch

10.1152/jn.00120.2025
Brain Science
publication / 2025
The xIV-LDDMM toolkit of image-varifold based technologies for mapping 3D images and spatial-omics across scales
Communications Biology
Brain Science
MindScope

Kaitlin M. Stouffer, Xiaoyin Chen, Hongkui Zeng, Benjamin Charlier, Laurent Younes, Alain Trouvé, Michael I. Miller

10.1038/s42003-025-08800-7
Brain Science
publication / 2025
Arousal as a universal embedding for spatiotemporal brain dynamics
Nature
Shanahan
Shanahan Fellowship

Ryan V. Raut, Zachary P. Rosenthal, Xiaodan Wang, Hanyang Miao, Zhanqi Zhang, Jin-Moo Lee, Marcus E. Raichle, Adam Q. Bauer, Steven L. Brunton, Bingni W. Brunton, J. Nathan Kutz

10.1038/s41586-025-09544-4
Shanahan
publication / 2025
AAV delivery of full-length SYNGAP1 rescues epileptic and behavioral phenotypes in a mouse model of SYNGAP1-related disorders
Molecular Therapy: The Journal of the American Society of Gene Therapy
Brain Science
MindScope
Brain Health

Meagan A. Quinlan, Rong Guo, Andrew G. Clark, Emily M. Luber, Robert J. Christian, Refugio A. Martinez, Erin L. Groce, Jiatai Liu, Yemeserach M. Bishaw, Ravi Bhowmik, Elizabeth Liang, Melissa Reding, Kara Ronellenfitch, Vonn Wright, Kathryn M. Gudsnuk, Jennifer M. Leedy, John K. Mich, Bryan B. Gore, Tanya L. Daigle, Manuel E. Lopez, Ed S. Lein, Justin K. Ichida, Boaz P. Levi

10.1016/j.ymthe.2025.09.040
AIBS First Author, AIBS Last Author, Brain Science
preprint / 2025
Harmonizing the Generation and Pre-publication Stewardship of FAIR Image Data
arXiv
Cell Science

Nikki Bialy, Frank Alber, Brenda Andrews, Michael Angelo, Brian Beliveau, Lacramioara Bintu, Alistair Boettiger, Ulrike Boehm, Claire M. Brown, Mahmoud Bukar Maina, James J. Chambers, Beth A. Cimini, Kevin Eliceiri, Rachel Errington, Orestis Faklaris, Nathalie Gaudreault, Ronald N. Germain, Wojtek Goscinski, David Grunwald, Michael Halter, Dorit Hanein, John W. Hickey, Judith Lacoste, Alex Laude, Emma Lundberg, Jian Ma, Leonel Malacrida, Josh Moore, Glyn Nelson, Elizabeth Kathleen Neumann, Roland Nitschke, Shuichi Onami, Jaime A. Pimentel, Anne L. Plant, Andrea J. Radtke, Bikash Sabata, Denis Schapiro, Johannes Schöneberg, Jeffrey M. Spraggins, Damir Sudar, Wouter-Michiel Adrien Maria Vierdag, Niels Volkmann, Carolina Wählby, Siyuan, Wang, Ziv Yaniv, Caterina Strambio-De-Castillia

10.48550/arxiv.2401.13022
Cell Science, External Collaboration, Newsletter, Opinion, Perspective
publication / 2025
Imaging high-frequency voltage dynamics in multiple neuron classes of behaving mammals
Cell
Brain Science
MindScope

Simon Haziza, Radosław Chrapkiewicz, Yanping Zhang, Vasily Kruzhilin, Jane Li, Jizhou Li, Geoffroy Delamare, Rachel Swanson, György Buzsáki, Madhuvanthi Kannan, Ganesh Vasan, Michael Z. Lin, Hongkui Zeng, Tanya L. Daigle, Mark J. Schnitzer

10.1016/j.cell.2025.08.010
Brain Science
publication / 2025
Impaired capillary-venous drainage contributes to gliosis and demyelination in mouse white matter during aging
Nature Neuroscience
Brain Science
MindScope

Stefan Stamenkovic, Franca Schmid, Gokce Gurler, Farzaneh Abolmaali, Nicolas A. Weitermann, Kevin T. Takasaki, Stephanie K. Bonney, Maria J. Sosa, Hannah C. Bennett, Yongsoo Kim, Jack Waters, Andy Y. Shih

10.1038/s41593-025-02023-z
Brain Science
publication / 2025
Three-photon microscopy: an emerging technique for deep intravital brain imaging
Nature Reviews. Neuroscience
Brain Science
MindScope

Robert Prevedel, Júlia Ferrer Ortas, Jason N. D. Kerr, Jack Waters, Michael O. Breckwoldt, Benjamin Deneen, Michelle Monje, Stella J. Soyka, Varun Venkataramani

10.1038/s41583-025-00937-y
Brain Science
publication / 2025
Cholinergic neuronal activity promotes diffuse midline glioma growth through muscarinic signaling
Cell
Brain Science
MindScope

Richard Drexler, Antonia Drinnenberg, Avishai Gavish, Belgin Yalçin, Kiarash Shamardani, Abigail E. Rogers, Rebecca Mancusi, Vrunda Trivedi, Kathryn R. Taylor, Yoon Seok Kim, Pamelyn J. Woo, Neeraj Soni, Minhui Su, Alexandre Ravel, Eva Tatlock, Alexandra Midler, Samuel H. Wu, Charu Ramakrishnan, Ritchie Chen, Alberto E. Ayala-Sarmiento, David Rincon Fernandez Pacheco, La'Akea Siverts, Tanya L. Daigle, Bosiljka Tasic, Hongkui Zeng, Joshua J. Breunig, Karl Deisseroth, Michelle Monje

10.1016/j.cell.2025.05.031
Brain Science
publication / 2025
Imaging high-frequency voltage dynamics in multiple neuron classes of behaving mammals
Cell
Brain Science
MindScope

Simon Haziza, Radosław Chrapkiewicz, Yanping Zhang, Vasily Kruzhilin, Jane Li, Jizhou Li, Geoffroy Delamare, Rachel Swanson, György Buzsáki, Madhuvanthi Kannan, Ganesh Vasan, Michael Z. Lin, Hongkui Zeng, Tanya L. Daigle, Mark J. Schnitzer

10.1016/j.cell.2025.06.028
Brain Science
publication / 2025
An integrated view of the relationships between amyloid, tau, and inflammatory pathophysiology in Alzheimer's disease
Alzheimer's & Dementia: The Journal of the Alzheimer's Association
Brain Science
MindScope
Brain Health

Amy F. T. Arnsten, Kelly Del Tredici, Nicolas R. Barthélemy, Mariano Gabitto, Christopher H. van Dyck, Edward Lein, Heiko Braak, Dibyadeep Datta

10.1002/alz.70404
Brain Science
publication / 2025
The synaptic architecture of layer 5 thick tufted excitatory neurons in mouse visual cortex
Nature Neuroscience
Brain Science
MindScope

Agnes L. Bodor, Casey M. Schneider-Mizell, Chi Zhang, Leila Elabbady, Alex Mallen, Andi Bergeson, Derrick Brittain, JoAnn Buchanan, Daniel J. Bumbarger, Rachel Dalley, Clare Gamlin, Emily Joyce, Daniel Kapner, Sam Kinn, Gayathri Mahalingam, Sharmishtaa Seshamani, Shelby Suckow, Marc Takeno, Russel Torres, Wenjing Yin, J. Alexander Bae, Manuel A. Castro, Sven Dorkenwald, Akhilesh Halageri, Zhen Jia, Chris Jordan, Nico Kemnitz, Kisuk Lee, Kai Li, Ran Lu, Thomas Macrina, Eric Mitchell, Shanka Subhra Mondal, Shang Mu, Barak Nehoran, Sergiy Popovych, William Silversmith, Nicholas L. Turner, Szi-Chieh Yu, William Wong, Jingpeng Wu, Brendan Celii, Luke Campagnola, Stephanie C. Seeman, Tim Jarsky, Naixin Ren, Anton Arkhipov, Jacob Reimer, H. Sebastian Seung, R. Clay Reid, Forrest Collman, Nuno Maçarico da Costa

10.1038/s41593-025-02004-2
AIBS First Author, AIBS Last Author, Brain Science
publication / 2025
Accelerating biomedical discoveries in brain health through transformative neuropathology of aging and neurodegeneration
Neuron
Brain Science
MindScope

Melissa E. Murray, Colin Smith, Vilas Menon, C. Dirk Keene, Ed Lein, Michael Hawrylycz, Adriano Aguzzi, Brett Benedetti, Katja Brose, Kelsey Caetano-Anolles, Maria Inmaculada Cobos Sillero, John F. Crary, Philip L. De Jager, Arline Faustin, Margaret E. Flanagan, Ozgun Gokce, Seth G. N. Grant, Lea T. Grinberg, David A. Gutman, Elizabeth M. C. Hillman, Zhi Huang, David J. Irwin, David T. Jones, Alifiya Kapasi, Celeste M. Karch, Walter T. Kukull, Tammaryn Lashley, Edward B. Lee, Thomas Lehner, Laura Parkkinen, Maria Pedersen, Dominique Pritchett, Matthew H. Rutledge, Julie A. Schneider, William W. Seeley, Claire E. Shepherd, Tara L. Spires-Jones, Judith A. Steen, Margaret Sutherland, Sanja Vickovic, Bin Zhang, David J. Stewart, Michael J. Keiser, Jacob W. Vogel, Brittany N. Dugger, Hemali Phatnani

10.1016/j.neuron.2025.06.014
Brain Science
publication / 2025
Interpretable representation learning for 3D multi-piece intracellular structures using point clouds
Nature Methods
Cell Science

Ritvik Vasan, Alexandra J. Ferrante, Antoine Borensztejn, Christopher L. Frick, Philip Garrison, Nathalie Gaudreault, Saurabh S. Mogre, Fatwir S. Mohammed, Benjamin Morris, Guilherme G. Pires, Daniel Saelid, Susanne M. Rafelski, Julie A. Theriot, Matheus P. Viana

10.1038/s41592-025-02729-9
Cell Science, Scientific, Technical Discovery
publication / 2025
Expansion-assisted selective plane illumination microscopy for nanoscale imaging of centimeter-scale tissues
eLife
Brain Science
MindScope
Neural Dynamics

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

10.7554/elife.91979
Neural Dynamics, Brain Science
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