Evidence map›Paper›PMID 36824961›Full record

ArticlebioRxiv : the preprint server for biology2023

Integrated single cell and unsupervised spatial transcriptomic analysis defines molecular anatomy of the human dorsolateral prefrontal cortex.

Louise Huuki-Myers, Abby Spangler, Nick Eagles, Kelsey D Montgomery, Sang Ho Kwon, Boyi Guo, Melissa Grant-Peters, Heena R Divecha, Madhavi Tippani, Chaichontat Sriworarat and 14 more

Abstract 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.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

24 authors.

Louise Huuki-MyersLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Abby SpanglerLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Nick EaglesLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Kelsey D MontgomeryLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Sang Ho KwonLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Boyi GuoDepartment of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.
Melissa Grant-PetersGenetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK.
Heena R DivechaLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Madhavi TippaniLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Chaichontat SriworaratLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Annie B NguyenLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Prashanthi RavichandranDepartment of Biomedical Engineering, Johns Hopkins School of Medicine, Baltimore, MD, USA.
Matthew N TranLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Arta SeyedianLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
PsychENCODE consortium
Thomas M HydeLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Joel E KleinmanLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Alexis BattleDepartment of Biomedical Engineering, Johns Hopkins School of Medicine, Baltimore, MD, USA.
Stephanie C PageLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Mina RytenGenetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London, UK.
Stephanie C HicksDepartment of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.
Keri MartinowichLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Leonardo Collado-TorresLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.
Kristen R MaynardLieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.

Funding

Laminar dissection of cortical human brain gene expression in neuropsychiatric disordersR01MH126393 · NIMH · LIEBER INSTITUTE, INC. · PI MARTINOWICH, KERI · 2021 to 2025
$3.9M
Modeling the dynamicimpact of rare and common genetic variation on gene expression anddiseaseR35GM139580 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI BATTLE, ALEXIS · 2021 to 2025
$3.1M
Integrative cellular deconvolution of human brain RNA sequencing dataR01MH123183 · NIMH · LIEBER INSTITUTE, INC. · PI HICKS, STEPHANIE CARINNE, MAYNARD, KRISTEN ROSE · 2020 to 2023
$2.3M
Spatial registration of gene expression in the human brainU01MH122849 · NIMH · LIEBER INSTITUTE, INC. · PI MARTINOWICH, KERI · 2020 to 2021
$1.7M
NIGMS NIH HHS R35 GM139580NIMH NIH HHS R01 MH123183NIMH NIH HHS R01 MH126393NIMH NIH HHS U01 MH122849
6 · The paper itself

Abstract

Generation of a molecular neuroanatomical map of the human prefrontal cortex reveals novel spatial domains and cell-cell interactions relevant for psychiatric disease. The molecular organization of the human neocortex has been historically studied in the context of its histological layers. However, emerging spatial transcriptomic technologies have enabled unbiased identification of transcriptionally-defined spatial domains that move beyond classic cytoarchitecture. Here we used the Visium spatial gene expression platform to generate a data-driven molecular neuroanatomical atlas across the anterior-posterior axis of the human dorsolateral prefrontal cortex (DLPFC). Integration with paired single nucleus RNA-sequencing data revealed distinct cell type compositions and cell-cell interactions across spatial domains. Using PsychENCODE and publicly available data, we map the enrichment of cell types and genes associated with neuropsychiatric disorders to discrete spatial domains. Finally, we provide resources for the scientific community to explore these integrated spatial and single cell datasets at research.libd.org/spatialDLPFC/.

Identifiers

PMID36824961
PMCPMC9949126

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Registered trials

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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.