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
allenites
the people who make our work possible
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
next generation leaders
fostering emerging leaders in bioscience
research
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
education
overview
science education
subheadline
open science
subheadline
engagement
education resources
real science. real skills.
field trips
experience science where it happens
educator development
empowering educators
news
news
stories
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
feature events
summer workshop on the dynamic brain
a two-week intensive workshop on computational neuroscience
science resources
science resources
allencell.org
allenimmunology.org
allenneuraldynamics.org
brain-bican.org
brain-map.org
microns-explorer.org
impact
back to menu
team science
our story
explore our impact
careers and opportunities
join us
open science
sharing science to speed discovery
open science week
celebrating open science
people & teams
people & teams
discovery is a team effort
allenites
the people who make our work possible
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
next generation leaders
fostering emerging leaders in bioscience
research
back to menu
overview
our approach
science at the scale of greatest impact
publications
science at the scale of greatest impact
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
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
news
stories
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
feature events
summer workshop on the dynamic brain
a two-week intensive workshop on computational neuroscience
open science week
celebrating open science
science resources
back to menu
science resources
allencell.org
allenimmunology.org
allenneuraldynamics.org
brain-bican.org
brain-map.org
microns-explorer.org
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 / 2009
Shifting the paradigm: new approaches for characterizing and classifying neurons
Current Opinion in Neurobiology
Brain Science
MindScope
This is some text inside of a div block.
publication / 2009
An anatomic gene expression atlas of the adult mouse brain
Nature Neuroscience
Brain Science
MindScope
Lydia Ng
David J. Anderson
Michael Hawrylycz
publication / 2009
A proposal for a coordinated effort for the determination of brainwide neuroanatomical connectivity in model organisms at a mesoscopic scale
PLoS computational biology
Brain Science
MindScope
Michael Hawrylycz
Allan Jones
Karel Svoboda
publication / 2008
Genomic anatomy of the hippocampus
Neuron
Brain Science
MindScope
Carol L. Thompson
publication / 2008
New developments in sleep research: molecular genetics, gene expression, and systems neurobiology
The Journal of Neuroscience: The Official Journal of the Society for Neuroscience
Brain Science
MindScope
This is some text inside of a div block.
publication / 2008
Sleep deprivation effects on circadian clock gene expression in the cerebral cortex parallel electroencephalographic differences among mouse strains
The Journal of Neuroscience: The Official Journal of the Society for Neuroscience
Brain Science
MindScope
Carol L. Thompson
publication / 2008
Exploration and visualization of gene expression with neuroanatomy in the adult mouse brain
BMC bioinformatics
Brain Science
MindScope
Lydia Ng
Allan Jones
publication / 2008
Quantitative methods for genome-scale analysis of in situ hybridization and correlation with microarray data
Genome Biology
Brain Science
MindScope
Carol L. Thompson
Lydia Ng
Cliff Slaughterbeck
publication / 2007
Insights from spatially mapped gene expression in the mouse brain
Human Molecular Genetics
Brain Science
MindScope
This is some text inside of a div block.
publication / 2007
Neuroinformatics for genome-wide 3D gene expression mapping in the mouse brain
IEEE/ACM transactions on computational biology and bioinformatics
Brain Science
MindScope
Lydia Ng
Ed Lein
Allan Jones
publication / 2007
Genome-wide atlas of gene expression in the adult mouse brain
Nature
Brain Science
MindScope
Carol L. Thompson
publication / 2006
Effects of genetically altered brain glucocorticoid receptor action on behavior and adrenal axis regulation in mice
Frontiers in Neuroendocrinology
Brain Science
MindScope
This is some text inside of a div block.
publication / 2006
Towards the integration of spatially and temporally resolved murine gene expression databases
Trends in genetics: TIG
Brain Science
MindScope
This is some text inside of a div block.
publication / 2004
Neurogenomics: at the intersection of neurobiology and genome sciences
Nature Neuroscience
Brain Science
MindScope
This is some text inside of a div block.
publication / 2004
Neurogenomics: at the intersection of neurobiology and genome sciences
Nature Neuroscience
Brain Science
MindScope
This is some text inside of a div block.
publication
A comprehensive platform for analyzing longitudinal multi-omics data
Immunology
Adam Savage
Aarthi Talla
Julian Reading
publication
BarWare: efficient software tools for barcoded single-cell genomics
Immunology
Julian Reading
Lucas T. Graybuck
Peter Skene
publication
Connectomics of predicted Sst transcriptomic types in mouse visual cortex
Nature
Brain Science
Nathan Gouwens
Grace Williams
Rachel Dalley
Previous
load more publications

No results found, try reducing your search parameters.

we acceleratedevelopcatalyzeimpact

science done differently. shared with the world.

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.

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 biologypublications
education
science educationfield tripsprofessional developmenteducation resources
quick links
newseventsopen sciencepodcastscience resourceshuman brain donationvisit uscontact
follow us/

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

© 0000 allen institute. all rights reserved.
privacy policyterms of usecitation policyemployee portalpolicy & compliance