Evidence map›Paper›PMID 39386671›Full record

ArticlebioRxiv : the preprint server for biology2024

Deconvolving organogenesis in space and time via spatial transcriptomics in thick tissues.

Soichiro Asami, Chenshuo Yin, Luis A Garza, Reza Kalhor

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. 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.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

4 authors.

Soichiro AsamiDepartment of Biomedical Engineering, Center for Epigenetics, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID 0000-0001-9583-3707
Chenshuo YinDepartment of Biomedical Engineering, Center for Epigenetics, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID 0009-0009-9326-9212
Luis A GarzaDepartment of Dermatology, Department of Cell Biology, Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID 0000-0002-6547-9695
Reza KalhorDepartment of Biomedical Engineering, Center for Epigenetics, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID 0000-0002-5558-7545

Funding

Dynamics of lineage-specific genome reorganization in gastrulation and their response to disease-associated epigenetic perturbationsU01HL156056 · NHLBI · JOHNS HOPKINS UNIVERSITY · PI KALHOR, REZA · 2020 to 2024
$3.1M
Mapping the dynamics of mouse neurogenesis in autism models using high-resolution genomic barcoding technologiesR01HG012357 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI KALHOR, REZA · 2022 to 2025
$2.1M
NHGRI NIH HHS R01 HG012357NHLBI NIH HHS U01 HL156056
6 · The paper itself

Abstract

Organ development is guided by a space-time landscape that constraints cell behavior. This landscape is challenging to characterize for the hair follicle - the most abundant mini organ - due to its complex microscopic structure and asynchronous development. We developed 3DEEP, a tissue clearing and spatial transcriptomic strategy for characterizing tissue blocks up to 400 µm in thickness. We captured 371 hair follicles at different stages of organogenesis in 1 mm

Identifiers

PMID39386671
PMCPMC11463617

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.