Evidence map›Paper›PMID 36865235›Full record

ArticlebioRxiv : the preprint server for biology2023

Cerebellar Granule Cells Develop Non-neuronal 3D Genome Architecture over the Lifespan.

Longzhi Tan, Jenny Shi, Siavash Moghadami, Cydney P Wright, Bibudha Parasar, Yunji Seo, Kristen Vallejo, Inma Cobos, Laramie Duncan, Ritchie Chen and 1 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. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed, 8 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors at 2 institutions in 1 country.

Longzhi TanDepartment of Neurobiology, Stanford University, Stanford, CA.
Jenny ShiDepartment of Neurobiology, Stanford University, Stanford, CA.
Siavash MoghadamiDepartment of Neurobiology, Stanford University, Stanford, CA.
Cydney P WrightDepartment of Neurobiology, Stanford University, Stanford, CA.
Bibudha ParasarDepartment of Neurobiology, Stanford University, Stanford, CA.
Yunji SeoDepartment of Neurobiology, Stanford University, Stanford, CA.
Kristen VallejoDepartment of Pathology, Stanford University, Stanford, CA.
Inma CobosDepartment of Pathology, Stanford University, Stanford, CA.
Laramie DuncanDepartment of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA.
Ritchie ChenDepartment of Bioengineering, Stanford University, Stanford, CA.
Karl DeisserothDepartment of Bioengineering, Stanford University, Stanford, CA.
Stanford University · USHoward Hughes Medical Institute · US

Funding

Sex hormones and post-traumatic stress disorder (PTSD)R01MH123486 · NIMH · STANFORD UNIVERSITY · PI DUNCAN, LARAMIE · 2020 to 2024
$2.1M
Molecular Pharmacology Training ProgramT32GM136631 · NIGMS · STANFORD UNIVERSITY · PI BOGYO, MATTHEW, CHEN, JAMES K · 2021 to 2025
$2.0M
Sex Chromosome GWAS of Post-Traumatic Stress Disorder (PTSD)R21MH125358 · NIMH · STANFORD UNIVERSITY · PI DUNCAN, LARAMIE · 2021 to 2022
$443k
Noninvasive Optogenetic Interventions for EpilepsyK99NS119784 · NINDS · STANFORD UNIVERSITY · PI CHEN, RITCHIE · 2021 to 2022
$245k
NIGMS NIH HHS T32 GM136631NIMH NIH HHS R01 MH123486NIMH NIH HHS R21 MH125358NINDS NIH HHS K99 NS119784
6 · The paper itself

Abstract

The cerebellum contains most of the neurons in the human brain, and exhibits unique modes of development, malformation, and aging. For example, granule cells-the most abundant neuron type-develop unusually late and exhibit unique nuclear morphology. Here, by developing our high-resolution single-cell 3D genome assay Dip-C into population-scale (Pop-C) and virus-enriched (vDip-C) modes, we were able to resolve the first 3D genome structures of single cerebellar cells, create life-spanning 3D genome atlases for both human and mouse, and jointly measure transcriptome and chromatin accessibility during development. We found that while the transcriptome and chromatin accessibility of human granule cells exhibit a characteristic maturation pattern within the first year of postnatal life, 3D genome architecture gradually remodels throughout life into a non-neuronal state with ultra-long-range intra-chromosomal contacts and specific inter-chromosomal contacts. This 3D genome remodeling is conserved in mice, and robust to heterozygous deletion of chromatin remodeling disease-associated genes (

Identifiers

PMID36865235
PMCPMC9980173
OpenAlexW4322020349

What OpenQuestion holds

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LicenceCC BY
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.