Evidence map›Paper›PMID 36945580›Full record

ArticlebioRxiv : the preprint server for biology2023

The cell type composition of the adult mouse brain revealed by single cell and spatial genomics.

Jonah Langlieb, Nina S Sachdev, Karol S Balderrama, Naeem M Nadaf, Mukund Raj, Evan Murray, James T Webber, Charles Vanderburg, Vahid Gazestani, Daniel Tward and 7 more

Open access · greenAbstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed, 47 citations in OpenAlex.

  1. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

17 authors at 3 institutions in 1 country.

Jonah LangliebBroad Institute of Harvard and MIT, Cambridge, MA USA.
Nina S SachdevBroad Institute of Harvard and MIT, Cambridge, MA USA.
Karol S BalderramaBroad Institute of Harvard and MIT, Cambridge, MA USA.
Naeem M NadafBroad Institute of Harvard and MIT, Cambridge, MA USA.
Mukund RajBroad Institute of Harvard and MIT, Cambridge, MA USA.
Evan MurrayBroad Institute of Harvard and MIT, Cambridge, MA USA.
James T WebberBroad Institute of Harvard and MIT, Cambridge, MA USA.
Charles VanderburgBroad Institute of Harvard and MIT, Cambridge, MA USA.
Vahid GazestaniBroad Institute of Harvard and MIT, Cambridge, MA USA.
Daniel TwardDepartments of Computational Medicine and Neurology, University of California Los Angeles, Los Angeles, CA USA.
Chris MeziasCold Spring Harbor Laboratory, Cold Spring Harbor, NY USA.
Xu LiCold Spring Harbor Laboratory, Cold Spring Harbor, NY USA.
Dylan M CableBroad Institute of Harvard and MIT, Cambridge, MA USA.
Tabitha NortonBroad Institute of Harvard and MIT, Cambridge, MA USA.
Partha MitraCold Spring Harbor Laboratory, Cold Spring Harbor, NY USA.
Fei ChenBroad Institute of Harvard and MIT, Cambridge, MA USA.
Evan Z MacoskoBroad Institute of Harvard and MIT, Cambridge, MA USA.
Broad Institute · USCold Spring Harbor Laboratory · USUniversity of California, Los Angeles · US

Funding

Tool and Technology Development CoreU19MH114821 · NIMH · COLD SPRING HARBOR LABORATORY · PI HUANG, Z JOSH · 2017 to 2021
$64.5M
A high-resolution molecular and lineage atlas of the mouse brain using Slide-seqRF1MH124598 · NIMH · BROAD INSTITUTE, INC. · PI CHEN, FEI, MACOSKO, EVAN Z · 2020 to 2020
$1.9M
NIMH NIH HHS RF1 MH124598NIMH NIH HHS U19 MH114821
6 · The paper itself

Abstract

The function of the mammalian brain relies upon the specification and spatial positioning of diversely specialized cell types. Yet, the molecular identities of the cell types, and their positions within individual anatomical structures, remain incompletely known. To construct a comprehensive atlas of cell types in each brain structure, we paired high-throughput single-nucleus RNA-seq with Slide-seq-a recently developed spatial transcriptomics method with near-cellular resolution-across the entire mouse brain. Integration of these datasets revealed the cell type composition of each neuroanatomical structure. Cell type diversity was found to be remarkably high in the midbrain, hindbrain, and hypothalamus, with most clusters requiring a combination of at least three discrete gene expression markers to uniquely define them. Using these data, we developed a framework for genetically accessing each cell type, comprehensively characterized neuropeptide and neurotransmitter signaling, elucidated region-specific specializations in activity-regulated gene expression, and ascertained the heritability enrichment of neurological and psychiatric phenotypes. These data, available as an online resource (BrainCellData.org) should find diverse applications across neuroscience, including the construction of new genetic tools, and the prioritization of specific cell types and circuits in the study of brain diseases.

Identifiers

PMID36945580
PMCPMC10028805
OpenAlexW4323538544

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.