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Allen Institute for Brain Science

Scholars1.1K
Papers334
Citations5.4K
Related Papers (333)
Publication Date
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Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering
errNature Methods
IF32.1
err2026-08-24
err0
errOAAI
errJieran Sun; Kirti Biharie; Peiying Cai; Niklas Müller-Bötticher; Paul Kiessling; Meghan A. Turner; Søren Helweg Dam; Florian Heyl; Sarusan Kathirchelvan; Martin Emons; Samuel Gunz; Sven Twardziok; Amin El-Heliebi; Martin Zacharias; Roland Eils; Marcel Reinders; Raphael Gottardo; Christoph Kuppe; Brian Long; Ahmed Mahfouz; Mark D. Robinson; Naveed Ishaque
errShare
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Complex subtelomeric architectures in a complete rhesus macaque reference genome
errCell
IF42.5
err2026-08-06
err0
PREAI
errShilong Zhang; Ning Xu; Yong Lu; Yanhong Nie; Zhengtong Li; Luciana de Gennaro; Alessandra La Torraca; Lianting Fu; Zhendong Zhang; Jieyi Chen; Kaiyue Ma; Xiangyu Yang; Juan Zhang; Matthew T. Schmitz; Francesca Antonacci; Trygve E. Bakken; Mario Ventura; Adam M. Phillippy; Qiang Sun; Yafei Mao
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Hippocampal CA3 connectomics reveals a gradient of mossy fiber inputs and selective feedforward inhibition onto pyramidal cells
errNature Neuroscience
IF20
err2026-08-05
err0
errOAAI
errZhihao Zheng; Changjoo Park; Eric W. Hammerschmith; Ran Lu; Szi-Chieh Yu; Marissa Sorek; Ben Silverman; Chris S. Jordan; Amy R. Sterling; William M. Silversmith; Philipp Schlegel; Gregory S. X. E. Jefferis; Forrest Collman; H. Sebastian Seung; David W. Tank
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A framework for comparative analysis of human and mouse cortical neuron dendrites in corresponding brain regions
errNature Neuroscience
IF20
err2026-07-14
err0
errOAAI
errZhixi Yun; Wen Ye; Nan Ji; Yujin Wang; Jing Rong; Tian Li; Yingxin Li; Qi Shen; Ruilong Wang; Hairuo Zhang; Hao Xu; Nan Mo; Binghua Song; Xin Chen; Yi Wang; Yiying Mai; Ming Ding; Song-Lin Ding; Lijuan Liu; Liwei Zhang; Hanchuan Peng
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Connecting single-cell transcriptomes to projectomes in the mouse visual cortex
errNature
IF48.5
err2026-07-01
err0
errOAAI
errStaci A. Sorensen; Nathan W. Gouwens; Yun Wang; Matt Mallory; Agata Budzillo; Rachel Dalley; Brian R. Lee; Olga Gliko; Hsien-chi Kuo; Xiuli Kuang; Rusty Mann; Leila Ahmadinia; Lauren Alfiler; Fahimeh Baftizadeh; Katherine S. Baker; Sarah Bannick; Darren Bertagnolli; Kris Bickley; Phil Bohn; Jasmine Bomben; Chris Bowman; Gabriella Boyer; Krissy Brouner; Dillan Brown; Alex Cahoon; Natalie Chen; Chao Chen; Kai Chen; Maggie Chvilicek; Forrest Collman; Tanya L. Daigle; Tim Dawes; Rebecca de Frates; Nick Dee; Maxwell DePartee; Tom Egdorf; Laila El-Hifnawi; Rachel Enstrom; Luke Esposito; Colin Farrell; Rohan Gala; Clare Gamlin; Amanda Gary; Andrew Glomb; Olena Gerasymchuk; Jeff Goldy; Hong Gu; Kristen Hadley; Mike Hawrylycz; Alex Henry; Dijon Hill; Karla E. Hirokawa; Zili Huang; Katelyn Johnson; Zoe Juneau; Sara Kebede; Lisa Kim; Lauren Kruse; Changkyu Lee; Arielle L. Leon; Phil Lesnar; Quinn Lheureux; Anan Li; Yaoyao Li; Elizabeth Liang; Katie Link; Michelle Maxwell; Medea McGraw; Delissa A. McMillen; Alice Mukora; Lindsay Ng; Thomas Ochoa; Aaron Oldre; Daniel Park; Christina Alice Pom; Zoran Popovich; Lydia Potekhina; Ram Rajanbabu; Shea Ransford; Melissa R. Reding; Augustin Ruiz; David Sandman; Martin Schroedter; Josh Sevigny; Lyudmila Shulga; La’Akea Siverts; Cliff R. Slaughterbeck; Kimberly A. Smith; Michelle Stoecklin; Josef Sulc; Susan M. Sunkin; Michael Tieu; Jonathan T. Ting; Jessica Trinh; Ramel Velasco; Sara Vargas; Dave Vumbaco; Miranda Walker; Micheal Wang; Adrian Wanner; Jack Waters; Mirah Wells; Grace Williams; Julia A. Wilson; Wei Xiong; Ed S. Lein; Jim Berg; Brian E. Kalmbach; Shenqin Yao; Hui Gong; Qingming Luo; Quanxin Wang; Lydia Ng; Uygar Sümbül; Zizhen Yao; Tim Jarsky; Bosiljka Tasic; Hongkui Zeng
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Brain-wide topographic coordination of rotating waves
errScience
IF45.8
err2026-06-18
err0
PREAI
errZhiwen Ye; Alexander E. Ladd; Nancy MacKenzie; Ljuvica Kolich; Anna J. Li; Daniel Birman; Matthew S. Bull; Tanya L. Daigle; Bosiljka Tasic; Hongkui Zeng; Nicholas A. Steinmetz
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WSB.APP/PS1 mice develop age-dependent cerebral amyloid angiopathy, cerebrovascular dysfunction, and white matter deficits
erralzheimer's & dementia
IF0
err2026-06-16
err0
errOAAI
errOlivia J. Marola; Asli Uyar; Kelly J. Keezer; Juan Antonio K. Chong Chie; Kevin J. Elk; Abigail E. Cullen; Kierra Eldridge; Scott Persohn; Jonathan Nyandu Kanyinda; Jennifer D. Whitesell; Julie A. Harris; Paul Salama; Ashley E. Walker; Gregory W. Carter; Michael Sasner; Paul R. Territo; Gareth R. Howell; Kristen D. Onos
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errSave
Search, organize, aggregate and share image data with BioFile Finder (BFF)
errNature Methods
IF32.1
err2026-06-15
err0
PREAI
errSean L. Meharry; Antoine Borensztejn; Nathalie Gaudreault; Jordan Lucas; Gabe Medrash; Lisa Schaefbauer; Daniel Toloudis; Anya Wallace; Brian Whitney; Lyndsay Wilhelm; Yoav Ben-Simon; Jean-Marie Burel; Jianxu Chen; Kevin W. Eliceiri; Anika Grüneboom; Koji Kyoda; Josh Moore; William Moore; Shuichi Onami; Davide Panzeri; Curtis T. Rueden; Bosiljka Tasic; Graham T. Johnson
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errSave
CellBouncer, a unified toolkit for single-cell demultiplexing and ambient RNA analysis, reveals hominid mitochondrial incompatibilities
errCell Genomics
IF9
err2026-06-10
err0
errOAAI
errNathan K. Schaefer; Bryan J. Pavlovic; Matthew T. Schmitz; Alex A. Pollen
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errSave
Distributed control circuits across a brain-and-cord connectome
errNature
IF48.5
err2026-06-08
err0
PREAI
errAlexander S. Bates; Jasper S. Phelps; Minsu Kim; Helen H. Yang; Arie Matsliah; Zaki Ajabi; Eric Perlman; Kevin M. Delgado; Mohammed Abdal Monium Osman; Christopher K. Salmon; Jay Gager; Benjamin Silverman; Sophia Renauld; Farzaan Salman; Janki Patel; Matthew F. Collie; Jingxuan Fan; Diego A. Pacheco; Yunzhi Zhao; Wenyi Zhang; Laia Serratosa Capdevila; Ruairí J. V. Roberts; Eva J. Munnelly; Nina Griggs; Helen Langley; Borja Moya-Llamas; Zuoyu Zhang; Ryan T. Maloney; Szi-chieh Yu; Amy R. Sterling; Marissa Sorek; Krzysztof Kruk; Nikitas Serafetinidis; Serene Dhawan; Finja Klemm; Paul Brooks; Ellen Lesser; Jessica M. Jones; Sara E. Pierce-Lundgren; Su-Yee Lee; Yichen Luo; Andrew P. Cook; Theresa H. McKim; Dimitrios Stasi Giakoumas; Benjamin Gorko; Justin Ellis-Joyce; Jiayi Zhang; Emily C. Kophs; Tjalda Falt; Alexa M. Negron-Morales; Austin Burke; James Hebditch; Kyle P. Willie; Ryan Willie; Sergiy Popovych; Nico Kemnitz; Dodam Ih; Kisuk Lee; Ran Lu; Akhilesh Halageri; J. Alexander Bae; Ben Jourdan; Gregory Schwartzman; Damian D. Demarest; Emily Behnke; Doug Bland; Anne Kristiansen; Jaime Skelton; Tom Stocks; Dustin Garner; Anthony Hernandez; Sandeep Kumar; Kevin C. Daly; Sven Dorkenwald; Forrest Collman; Marie P. Suver; Lisa M. Fenk; Michael J. Pankratz; Zepeng Yao; Fei Wang; Stephen J. Huston; Tomke Stürner; Gregory S. X. E. Jefferis; Katharina Eichler; Andrew M. Seeds; Stefanie Hampel; Sweta Agrawal; Tatsuo S. Okubo; Meet Zandawala; Thomas Macrina; Diane-Yayra Adjavon; Jan Funke; John C. Tuthill; Anthony Azevedo; H. Sebastian Seung; Benjamin L. de Bivort; Mala Murthy; Jan Drugowitsch; Rachel I. Wilson; Wei-Chung Allen Lee
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Neuropixels Opto: combining high-resolution electrophysiology and optogenetics
errNature Methods
IF32.1
err2026-06-01
err0
errOAAI
errAnna A. Lakunina; Karolina Z. Socha; Alexander E. Ladd; Anna J. Bowen; Susu Chen; Jennifer Colonell; Anjal Doshi; Bill Karsh; Michael Krumin; Pavel Kulik; Anna J. Li; Pieter Neutens; John O’Callaghan; Meghan Olsen; Jan Putzeys; Charu Bai Reddy; Harrie A. C. Tilmans; Sara Vargas; Marleen Welkenhuysen; Zhiwen Ye; Michael Häusser; Christof Koch; Jonathan T. Ting; Barundeb Dutta; Timothy D. Harris; Nicholas A. Steinmetz; Karel Svoboda; Joshua H. Siegle; Matteo Carandini
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Cell- and state-specific plasticity of striatal glutamatergic synapses is critical to the expression of levodopa-induced dyskinesia
errNeuron
IF15
err2026-05-04
err0
errOAAI
errWeixing Shen; Shenyu Zhai; Veronica Francardo; Qiaoling Cui; Linqing Sun; Zhong Xie; Tatiana Tkatch; Valeria Estrada Corredor; Edward S. Lein; Jonathan T. Ting; M. Angela Cenci; D. James Surmeier
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errSave
Genoarchitecture and input–output organization of the mouse basal ganglia and thalamic parafascicular nucleus
errNature Neuroscience
IF20
err2026-04-28
err0
errOAAI
errQuanxin Wang; Ashwin Bhandiwad; Nathan W. Gouwens; Shenqin Yao; Yun Wang; Xiuli Kuang; Anan Li; Xiangning Li; Rachel Dalley; Hsien-Chi Kuo; Phil Lesnar; Wenjie Xu; Matt Mallory; Yaoyao Li; Laila El-Hifnawi; Leila Ahmadinia; Ben Ouellette; Lauren Kruse; Lydia Ng; Hui Gong; Qingming Luo; Michael Kunst; Cindy T. J. van Velthoven; Zizhen Yao; Staci A. Sorensen; Hongkui Zeng
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Technical and biological sources of noise confound multiplexed enhancer AAV screening
errNature Communications
IF15.7
err2026-04-28
err0
errOAAI
errAvery C. Hunker; John K. Mich; Naz Taskin; Amy Torkelson; Trangthanh Cardenas; Jean-Benoît Lalanne; Joseph T. Mahoney; Darren Bertagnolli; Anish Bhaswanth Chakka; Rushil Chakrabarty; Nicholas P. Donadio; Rebecca Ferrer; Molly Gasperini; Jeff Goldy; Junitta Guzman; Kelly Jin; Shannon Khem; Rana Kutsal; Refugio A. Martinez; Dakota Newman; Nick Pena; Christine Rimorin; Dana Rocha; Nadiya V. Shapovalova; Michael Tieu; Natalie Weed; Thomas Zhou; Rebecca Hodge; Shenqin Yao; Jay Shendure; Kimberly A. Smith; Ed S. Lein; Bosiljka Tasic; Boaz P. Levi; Jonathan T. Ting
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Pool-packaged AAV libraries exhibit extensive length-dependent and homology-dependent chimerism
errNature Biotechnology
IF41.7
err2026-04-28
err0
errOAAI
errJean-Benoît Lalanne; Chau Huynh; John K. Mich; Avery C. Hunker; Troy A. McDiarmid; Haedong Kim; Boaz P. Levi; Jonathan T. Ting; Jay Shendure
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errSave
The Cell Ontology in the age of single-cell omics
errScientific Data
IF6.9
err2026-04-24
err0
errOAAI
errShawn Zheng Kai Tan; Aleix Puig-Barbe; Damien Goutte-Gattat; Caroline Eastwood; Brian Aevermann; Alida Avola; James P. Balhoff; Ismail Ugur Bayindir; Jasmine Belfiore; Anita Reane Caron; David S. Fischer; Nancy George; Benjamin M. Gyori; Melissa A. Haendel; Charles Tapley Hoyt; Huseyin Kir; Tiago Lubiana; Nicolas Matentzoglu; James A. Overton; Beverly Peng; Bjoern Peters; Ellen M. Quardokus; Patrick L. Ray; Paola Roncaglia; Andrea D. Rivera; Ray Stefancsik; Wei Kheng Teh; Sabrina Toro; Nicole Vasilevsky; Chuan Xu; Yun Zhang; Richard H. Scheuermann; Christopher J. Mungall; Alexander D. Diehl; David Osumi-Sutherland
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A central somatotopic map of the fly leg supports spatially targeted grooming
errCurrent Biology
IF7.5
err2026-04-10
err0
PREAI
errLeila Elabbady; Grant M. Chou; Anne Sustar; Andrew Cook; Forrest Collman; John C. Tuthill
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errSave
Multifold increase in spinal inhibitory cell types with emergence of limb movement
errCell Reports
IF6.9
err2026-04-10
err0
errOAAI
errDavid Vijatovic; Florina Alexandra Toma; Yuri Ignatyev; Zoe P.M. Harrington; Christoph Sommer; Robert Hauschild; Matthjis Smits; Marco Dalla Vecchia; Alexandra J. Trevisan; Phillip Chapman; Mara J. Julseth; Susan Brenner-Morton; Mariano I. Gabitto; Jeremy S. Dasen; Jay B. Bikoff; Lora B. Sweeney
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Author Correction: Foundation model of neural activity predicts response to new stimulus types
errNature
IF48.5
err2026-04-08
err0
errOAAI
errEric Y. Wang; Paul G. Fahey; Zhuokun Ding; Stelios Papadopoulos; Kayla Ponder; Marissa A. Weis; Andersen Chang; Taliah Muhammad; Saumil Patel; Zhiwei Ding; Dat Tran; Jiakun Fu; Casey M. Schneider-Mizell; R. Clay Reid; Forrest Collman; Nuno Maçarico da Costa; Katrin Franke; Alexander S. Ecker; Jacob Reimer; Xaq Pitkow; Fabian H. Sinz; Andreas S. Tolias
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Insights and priorities from the 2025 private funders’ Parkinson's disease and related disorders large footprint data interoperability summit
errJournal of Parkinson’s Disease
IF0
err2026-03-10
err0
PREAI
errLeslie C Kirsch; Emily Baxi; Mukta Phatak; Francis Jeanson; Dave Alonso; Cornelis Blauwendraat; Matthew CH Boersma; Patrick Brannelly; Matthew HS Clement; Amy Easton; Hilary Jenkins; Ritu Kapur; Tyler Mollenkopf; Bryce Pickard; Amy Rommel; Carol L Thompson; Jonathan White; Sonya B Dumanis
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errSave