Skip to main content
impact
about
our story
explore our impact
careers and opportunities
join us
open science
sharing science to speed discovery
open science week
celebrating open science
team science
people & teams
discovery is a team effort
advisors
their input shapes our science
board of directors
they help us fulfill our mission
shanahan foundation fellowship
at the interface of data and neuroscience
studio d3 fellowship
contribute bold ideas to redefine discovery
next generation leaders
fostering emerging leaders in bioscience
research
overview
our approach
science at the scale of greatest impact
additional programs
studio d3
data driven discovery
neurobiology of action
revealing the mechanisms behind movement and learning
science accelerators
brain science
building a blueprint of the brain
cell science
understanding how cells become organs
neural dynamics
revealing the brain’s hidden algorithms
immunology
mapping the immune system
synthetic biology
designing biology to advance health
brain health
accelerating human brain research
ai biodesign
unlocking new frontiers of bioscience
education
overview
science education
science is for everyone
open science
sharing science speeds discovery
engagement
education resources
real science. real skills.
field trips
experience science where it happens
educator development
empowering educators
news
overview
all news
explore the latest news
podcast
the human stories behind discovery
sign up for our newsletter
stay connected to our science
events
overview
all events
public engagement, workshops, seminars and more
conferences
connect with us
science resources
explore
publications
explore our publications
open science
sharing science to speed discovery
science resources
allencell.org
allenimmunology.org
allenneuraldynamics.org
brain-bican.org
brain-map.org
microns-explorer.org
impact
back to menu
overview
our story
explore our impact
careers and opportunities
join us
open science
sharing science to speed discovery
open science week
celebrating open science
team science
people & teams
discovery is a team effort
advisors
their input shapes our science
board of directors
they help us fulfill our mission
shanahan foundation fellowship
at the interface of data and neuroscience
studio d3 fellowship
contributing bold ideas to redefine discovery
next generation leaders
fostering emerging leaders in bioscience
research
back to menu
overview
our approach
science at the scale of greatest impact
publications
explore our publications
open science
sharing science to speed discovery
science accelerators
brain science
building a blueprint of the brain
cell science
understanding how cells become organs
neural dynamics
revealing the brain’s hidden algorithms
immunology
creating the ultimate immune system reference
synthetic biology
seattle hub for synthetic biology
brain health
accelerating human brain research and disease therapeutics
ai biodesign
unlocking new frontiers of bioscience
additional programs
studio d3
data driven discovery
neurobiology of action
revealing the mechanisms behind movement and learning
education
back to menu
overview
science education
science is for everyone
open science
sharing science speeds discovery
engagement
education resources
real science. real skills.
field trips
experience science where it happens
educator development
empowering educators
news
back to menu
overview
all news
explore the latest news
podcast
the human stories behind discovery
newsletter
stay connected to our science
events
back to menu
overview
all events
public engagement, workshops, seminars and more
conferences
connect with us
science resources
back to menu
science resources
allencell.org
allenimmunology.org
allenneuraldynamics.org
brain-bican.org
brain-map.org
microns-explorer.org
explore
publications
explore our publications
open science
sharing science to speed discovery
search

publications

explore publications from the allen institute

latest publications

2026
2025
2024
2023
2022
2021
2020
2019
2018
2017
2016
2015
2014
2013
2012
2011
2010
2009
2008
2007
2006
2005
2004
Brain and Consciousness
Brain Science
Cell Science
Education
Immunology
Neural Dynamics
Synthetic Biology
Shanahan Fellowship
Brain Health
Thank you! Your submission has been received!
Oops! Something went wrong while submitting the form.
publication / 2023
All-optical recreation of naturalistic neural activity with a multifunctional transgenic reporter mouse
Cell Reports
Brain Science
MindScope

Hayley A. Bounds, Masato Sadahiro, William D. Hendricks, Marta Gajowa, Karthika Gopakumar, Daniel Quintana, Bosiljka Tasic, Tanya L. Daigle, Hongkui Zeng, Ian Antón Oldenburg, Hillel Adesnik

10.1016/j.celrep.2023.112909
Brain Science
publication / 2023
Neuroscience Needs Network Science
The Journal of Neuroscience: The Official Journal of the Society for Neuroscience
Brain Science
MindScope

Dániel L. Barabási, Ginestra Bianconi, Ed Bullmore, Mark Burgess, SueYeon Chung, Tina Eliassi-Rad, Dileep George, István A. Kovács, Hernán Makse, Thomas E. Nichols, Christos Papadimitriou, Olaf Sporns, Kim Stachenfeld, Zoltán Toroczkai, Emma K. Towlson, Anthony M. Zador, Hongkui Zeng, Albert-László Barabási, Amy Bernard, György Buzsáki

publication / 2023
Ferroptosis of Microglia in Aging Human White Matter Injury
Annals of Neurology
Brain Science
MindScope

Philip A. Adeniyi, Xi Gong, Ellie MacGregor, Kiera Degener-O'Brien, Evelyn McClendon, Mariel Garcia, Oscar Romero, Joshua Russell, Taasin Srivastava, Jeremy Miller, C. Dirk Keene, Stephen A. Back

publication / 2023
Transcriptional maintenance of cortical somatostatin interneuron subtype identity during migration
Neuron
Brain Science
MindScope

Hermany Munguba, Kasra Nikouei, Hannah Hochgerner, Polina Oberst, Alexandra Kouznetsova, Jesper Ryge, Ana Belén Muñoz-Manchado, Jennie Close, Renata Batista-Brito, Sten Linnarsson, Jens Hjerling-Leffler

publication / 2023
Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project
Molecular Cell
Brain Science
MindScope
Cell Science

Job Dekker, Frank Alber, Sarah Aufmkolk, Brian J. Beliveau, Benoit G. Bruneau, Andrew S. Belmont, Lacramioara Bintu, Alistair Boettiger, Riccardo Calandrelli, Christine M. Disteche, David M. Gilbert, Thomas Gregor, Anders S. Hansen, Bo Huang, Danwei Huangfu, Reza Kalhor, Christina S. Leslie, Wenbo Li, Yun Li, Jian Ma, William S. Noble, Peter J. Park, Jennifer E. Phillips-Cremins, Katherine S. Pollard, Susanne M. Rafelski, Bing Ren, Yijun Ruan, Yaron Shav-Tal, Yin Shen, Jay Shendure, Xiaokun Shu, Caterina Strambio-De-Castillia, Anastassiia Vertii, Huaiying Zhang, Sheng Zhong

publication / 2023
Emerging roles of oligodendrocyte precursor cells in neural circuit development and remodeling
Trends in Neurosciences
Brain Science
MindScope

JoAnn Buchanan, Nuno Maçarico da Costa, Lucas Cheadle

10.1016/j.tins.2023.05.007
AIBS First Author, Brain Science
publication / 2023
Simulations of cortical networks using spatially extended conductance-based neuronal models
The Journal of Physiology
Brain Science
MindScope
Brain and Consciousness

Darrell Haufler, Shinya Ito, Christof Koch, Anton Arkhipov

10.1113/jp284030
#consciousness, MindScope Program
publication / 2023
Uncovering circuit mechanisms of current sinks and sources with biophysical simulations of primary visual cortex
eLife
Brain Science
MindScope
Brain and Consciousness

Atle E. Rimehaug, Alexander J. Stasik, Espen Hagen, Yazan N. Billeh, Josh H. Siegle, Kael Dai, Shawn R. Olsen, Christof Koch, Gaute T. Einevoll, Anton Arkhipov

10.7554/elife.87169
#consciousness, Brain Science
publication / 2023
Genes associated with cognitive ability and HAR show overlapping expression patterns in human cortical neuron types
Nature Communications
Brain Science
MindScope

Stan L. W. Driessens, Anna A. Galakhova, Djai B. Heyer, Isabel J. Pieterse, René Wilbers, Eline J. Mertens, Femke Waleboer, Tim S. Heistek, Loet Coenen, Julia R. Meijer, Sander Idema, Philip C. de Witt Hamer, David P. Noske, Christiaan P. J. de Kock, Brian R. Lee, Kimberly Smith, Jonathan T. Ting, Ed S. Lein, Huibert D. Mansvelder, Natalia A. Goriounova

10.1038/s41467-023-39946-9
Brain Science
publication / 2023
Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes
Cell Genomics
Brain Science
MindScope

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

10.1016/j.xgen.2023.100342
Brain Science
publication / 2023
Sharing neurophysiology data from the Allen Brain Observatory
eLife
Brain Science
MindScope
Brain and Consciousness

Saskia EJ de Vries, Joshua H Siegle, Christof Koch

10.7554/elife.85550
#consciousness, Brain Science
publication / 2023
Teaching and Training with Open Science: From Classroom Teaching Tool to Professional Development
Neuroscience
Brain Science
Education and Engagement

Kaitlyn Casimo

publication / 2023
Adeno-associated viral vectors for functional intravenous gene transfer throughout the non-human primate brain
Nature Nanotechnology
Brain Science
MindScope

Miguel R. Chuapoco, Nicholas C. Flytzanis, Nick Goeden, J. Christopher Octeau, Kristina M. Roxas, Ken Y. Chan, Jon Scherrer, Janet Winchester, Roy J. Blackburn, Lillian J. Campos, Kwun Nok Mimi Man, Junqing Sun, Xinhong Chen, Arthur Lefevre, Vikram Pal Singh, Cynthia M. Arokiaraj, Timothy F. Shay, Julia Vendemiatti, Min J. Jang, John K. Mich, Yemeserach Bishaw, Bryan B. Gore, Victoria Omstead, Naz Taskin, Natalie Weed, Boaz P. Levi, Jonathan T. Ting, Cory T. Miller, Benjamin E. Deverman, James Pickel, Lin Tian, Andrew S. Fox, Viviana Gradinaru

10.1038/s41565-023-01419-x
Brain Science
publication / 2023
When seeing is not believing: application-appropriate validation matters for quantitative bioimage analysis
Nature Methods
Cell Science

Jianxu Chen, Matheus P. Viana, Susanne M. Rafelski

10.1038/s41592-023-01881-4
Cell Science, External Collaboration, Newsletter, Opinion, Perspective
publication / 2023
AI to the rescue of voltage imaging
Cell Reports Methods
Brain Science
MindScope

Jérôme A. Lecoq, Kaspar Podgorski, Benjamin F. Grewe

publication / 2023
Cortico-thalamo-cortical interactions modulate electrically evoked EEG responses in mice
eLife
Brain Science
MindScope
Brain and Consciousness

Leslie D. Claar, Irene Rembado, Jacqulyn R. Kuyat, Simone Russo, Lydia C. Marks, Shawn R. Olsen, Christof Koch

10.7554/elife.84630
#consciousness, Brain Science
publication / 2023
Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain
Scientific Reports
Brain Science
MindScope

Yun Zhang, Jeremy A. Miller, Jeongbin Park, Boudewijn P. Lelieveldt, Brian Long, Tamim Abdelaal, Brian D. Aevermann, Tommaso Biancalani, Charles Comiter, Oleh Dzyubachyk, Jeroen Eggermont, Christoffer Mattsson Langseth, Viktor Petukhov, Gabriele Scalia, Eeshit Dhaval Vaishnav, Yilin Zhao, Ed S. Lein, Richard H. Scheuermann

10.1038/s41598-023-36638-8
Brain Science
preprint / 2023
Expansion-assisted selective plane illumination microscopy for nanoscale imaging of centimeter-scale tissues
bioRxiv
Neural Dynamics

Adam Glaser, Jayaram Chandrashekar, Joshua Vasquez, Cameron Arshadi, Naveen Ouellette, Xiaoyun Jiang, Judith Baka, Gabor Kovacs, Micah Woodard, Sharmishtaa Seshamani, Kevin Cao, Nathan Clack, Andrew Recknagel, Anna Grim, Pooja Balaram, Emily Turschak, Alan Liddell, John Rohde, Ayana Hellevik, Kevin Takasaki, Lindsey Erion Barner, Molly Logsdon, Chris Chronopoulos, Saskia de Vries, Jonathan Ting, Steve Perlmutter, Brian Kalmbach, Nikolai Dembrow, R. Clay Reid, David Feng, Karel Svoboda

10.1101/2023.06.08.544277
Neural Dynamics
Previous
load more publications

No results found, try reducing your search parameters.

we acceleratedevelopcatalyzeimpact

science done differently. shared openly.

explore our accelerators

brain science

Mapping every cell, connection, and circuit in the brain—openly shared with the world.

cell science

Decoding how cells become tissues, then programming that knowledge into powerful new research tools.

neural dynamics

Revealing the brain's hidden algorithms that transform neural activity into real-world behavior.

immunology

Creating the deepest open reference for the healthy human immune system ever built.

synthetic biology

Engineering cells to record their own histories, transforming how we understand disease over time.

ai biodesign

Advancing evolution to explore biology’s full design space and advance human health

Brain Health

Accelerating human brain research and new therapeutic strategies for neurological conditions

research

Big questions, open answers, and science built to be shared.

education

Inspiring the next generation of scientists through open science resources.

impact

Our science is empowering researchers and advancing health worldwide.
advancing science through open, collaborative research
Get the allen institute newsletter
Stay informed on the latest breakthroughs in neuroscience, bioscience, and AI-driven research.
allen institute
impactpeople & teamscareers & opportunitiesalumnihistory & founder
science resources
allencell.orgallenimmunology.orgallenneuraldynamics.orgbrain-bican.orgbrain-map.orgmicrons-explorer.org
research
brain sciencecell scienceneural dynamicsimmunologysynthetic biologyai biodesignbrain healthpublicationsscience resources
quick links
newseventsopen sciencepodcasthuman brain donationvisit uscontact
education
science educationfield tripsprofessional developmenteducation resources
follow us/

allen institute, 615 Westlake Ave North, Seattle, WA 98109 +12065487055

© 0000 allen institute. all rights reserved.
privacy policyterms of usedmca policycitation policyemployee portalpolicy & compliancecookie settings