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
Seattle Hub Team
Shanahan Fellowship
Thank you! Your submission has been received!
Oops! Something went wrong while submitting the form.
publication / 2021
Alternating sources of perisomatic inhibition during behavior
Neuron
Brain Science
MindScope

Barna Dudok, Peter M. Klein, Ernie Hwaun, Brian R. Lee, Zizhen Yao, Olivia Fong, John C. Bowler, Satoshi Terada, Fraser T. Sparks, Gergely G. Szabo, Jordan S. Farrell, Jim Berg, Tanya L. Daigle, Bosiljka Tasic, Jordane Dimidschstein, Gord Fishell, Attila Losonczy, Hongkui Zeng, Ivan Soltesz

publication / 2021
Relationship between simultaneously recorded spiking activity and fluorescence signal in GCaMP6 transgenic mice
eLife
Brain Science
MindScope

Lawrence Huang, Peter Ledochowitsch, Ulf Knoblich, Jérôme Lecoq, Gabe J. Murphy, R. Clay Reid, Saskia Ej de Vries, Christof Koch, Hongkui Zeng, Michael A. Buice, Jack Waters, Lu Li

publication / 2021
Predictive learning as a network mechanism for extracting low-dimensional latent space representations
Nature Communications
Brain Science
MindScope

Stefano Recanatesi, Matthew Farrell, Guillaume Lajoie, Sophie Deneve, Mattia Rigotti, Eric Shea-Brown

publication / 2021
Analysis of spiking synchrony in visual cortex reveals distinct types of top-down modulation signals for spatial and object-based attention
PLoS computational biology
Brain Science
MindScope

Nobuhiko Wagatsuma, Brian Hu, Rüdiger von der Heydt, Ernst Niebur

publication / 2021
Highlights from the Era of Open Source Web-Based Tools
The Journal of Neuroscience: The Official Journal of the Society for Neuroscience
Brain Science
MindScope

Kristin R. Anderson, Julie A. Harris, Lydia Ng, Pjotr Prins, Sara Memar, Bengt Ljungquist, Daniel Fürth, Robert W. Williams, Giorgio A. Ascoli, Dani Dumitriu

publication / 2021
Patch-seq: Past, Present, and Future
The Journal of Neuroscience: The Official Journal of the Society for Neuroscience
Brain Science
MindScope

Marcela Lipovsek, Cedric Bardy, Cathryn R. Cadwell, Kristen Hadley, Dmitry Kobak, Shreejoy J. Tripathy

publication / 2021
Regional, Layer, and Cell-Type-Specific Connectivity of the Mouse Default Mode Network
Neuron
Brain Science
MindScope

Jennifer D. Whitesell, Adam Liska, Ludovico Coletta, Karla E. Hirokawa, Phillip Bohn, Ali Williford, Peter A. Groblewski, Nile Graddis, Leonard Kuan, Joseph E. Knox, Anh Ho, Wayne Wakeman, Philip R. Nicovich, Thuc Nghi Nguyen, Cindy T. J. van Velthoven, Emma Garren, Olivia Fong, Maitham Naeemi, Alex M. Henry, Nick Dee, Kimberly A. Smith, Boaz Levi, David Feng, Lydia Ng, Bosiljka Tasic, Hongkui Zeng, Stefan Mihalas, Alessandro Gozzi, Julie A. Harris

publication / 2021
Consistent cross-modal identification of cortical neurons with coupled autoencoders
Nature Computational Science
Brain Science
MindScope

Rohan Gala, Agata Budzillo, Fahimeh Baftizadeh, Jeremy Miller, Nathan Gouwens, Anton Arkhipov, Gabe Murphy, Bosiljka Tasic, Hongkui Zeng, Michael Hawrylycz, Uygar Sümbül

publication / 2021
The Effect of Inclusion Criteria on the Functional Properties Reported in Mouse Visual Cortex
eNeuro
Brain Science
MindScope

Natalia Mesa, Jack Waters, Saskia E. J. de Vries

publication / 2021
Expansion sequencing: Spatially precise in situ transcriptomics in intact biological systems
Science (New York, N.Y.)
Brain Science
MindScope

Shahar Alon, Daniel R. Goodwin, Anubhav Sinha, Asmamaw T. Wassie, Fei Chen, Evan R. Daugharthy, Yosuke Bando, Atsushi Kajita, Andrew G. Xue, Karl Marrett, Robert Prior, Yi Cui, Andrew C. Payne, Chun-Chen Yao, Ho-Jun Suk, Ru Wang, Chih-Chieh Jay Yu, Paul Tillberg, Paul Reginato, Nikita Pak, Songlei Liu, Sukanya Punthambaker, Eswar P. R. Iyer, Richie E. Kohman, Jeremy A. Miller, Ed S. Lein, Ana Lako, Nicole Cullen, Scott Rodig, Karla Helvie, Daniel L. Abravanel, Nikhil Wagle, Bruce E. Johnson, Johanna Klughammer, Michal Slyper, Julia Waldman, Judit Jané-Valbuena, Orit Rozenblatt-Rosen, Aviv Regev, IMAXT Consortium, George M. Church, Adam H. Marblestone, Edward S. Boyden

publication / 2021
Multiple Alu Exonization in 3'UTR of a Primate-Specific Isoform of CYP20A1 Creates a Potential miRNA Sponge
Genome Biology and Evolution
Brain Science
MindScope

Aniket Bhattacharya, Vineet Jha, Khushboo Singhal, Mahar Fatima, Dayanidhi Singh, Gaura Chaturvedi, Dhwani Dholakia, Rintu Kutum, Rajesh Pandey, Trygve E. Bakken, Pankaj Seth, Beena Pillai, Mitali Mukerji

publication / 2021
A course-based research experience using the Allen Brain Map: from research question to poster session
Journal of Undergraduate Neuroscience Education
Education and Engagement

Jim Ryan, Kaitlyn Casimo

publication / 2021
A Course-Based Research Experience Using the Allen Brain Map: From Research Question to Poster Session
Journal of undergraduate neuroscience education: JUNE: a publication of FUN, Faculty for Undergraduate Neuroscience
Brain Science
MindScope

Jim Ryan, Kaitlyn Casimo

publication / 2021
A Multisubcellular Compartment Model of AMPA Receptor Trafficking for Neuromodulation of Hebbian Synaptic Plasticity
Frontiers in Synaptic Neuroscience
Brain Science
MindScope

Stefan Mihalas, Alvaro Ardiles, Kaiwen He, Adrian Palacios, Alfredo Kirkwood

publication / 2021
Comprehensive Analysis of Long-Range Connectivity from and to the Posterior Parietal Cortex of the Mouse
Cerebral Cortex (New York, N.Y.: 1991)
Brain Science
MindScope

Seung Wook Oh, Sook Jin Son, John A. Morris, Joon Ho Choi, Changkyu Lee, Jong-Cheol Rah

publication / 2021
Computational Models of Interoception and Body Regulation
Trends in Neurosciences
Brain Science
MindScope

Frederike H. Petzschner, Sarah N. Garfinkel, Martin P. Paulus, Christof Koch, Sahib S. Khalsa

publication / 2021
Multi-Scale Light-Sheet Fluorescence Microscopy for Fast Whole Brain Imaging
Frontiers in Neuroanatomy
Brain Science
MindScope

Zhouzhou Zhang, Xiao Yao, Xinxin Yin, Zhangcan Ding, Tianyi Huang, Yan Huo, Runan Ji, Hanchuan Peng, Zengcai V. Guo

publication / 2021
Rodent Area Prostriata Converges Multimodal Hierarchical Inputs and Projects to the Structures Important for Visuomotor Behaviors
Frontiers in Neuroscience
Brain Science
MindScope

Chang-Hui Chen, Jin-Meng Hu, Shun-Yu Zhang, Xiao-Jun Xiang, Sheng-Qiang Chen, Song-Lin Ding

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 usecitation policyemployee portalpolicy & compliancecookie settings