A data-driven single-cell and spatial transcriptomic map of the human prefrontal cortex

被引：4

作者：

Huuki-Myers, Louise A. ^{[1
]}

Spangler, Abby ^{[1
]}

Eagles, Nicholas J. ^{[1
]}

Montgomery, Kelsey D. ^{[1
]}

Kwon, Sang Ho ^{[1
,2
]}

Guo, Boyi ^{[3
]}

Grant-Peters, Melissa ^{[4
,5
]}

Divecha, Heena R. ^{[1
]}

Tippani, Madhavi ^{[1
]}

Sriworarat, Chaichontat ^{[1
,2
]}

Nguyen, Annie B. ^{[1
]}

Ravichandran, Prashanthi ^{[6
]}

Tran, Matthew N. ^{[1
]}

Seyedian, Arta ^{[1
]}

Hyde, Thomas M. ^{[1
,7
,8
]}

Kleinman, Joel E. ^{[1
,7
]}

Battle, Alexis ^{[6
,9
,10
,11
]}

Page, Stephanie C. ^{[1
,7
]}

Ryten, Mina ^{[4
,5
,12
]}

Hicks, Stephanie C. ^{[3
,6
,11
,13
]}

Martinowich, Keri ^{[1
,2
,7
,14
]}

Collado-Torres, Leonardo ^{[1
,3
,13
]}

Maynard, Kristen R. ^{[1
,2
,7
]}

机构：

[1] Lieber Inst Brain Dev, Johns Hopkins Med Campus, Baltimore, MD 21205 USA

[2] Johns Hopkins Sch Med, Solomon H Snyder Dept Neurosci, Baltimore, MD 21205 USA

[3] Johns Hopkins Bloomberg Sch Publ Hlth, Dept Biostat, Baltimore, MD 21205 USA

[4] UCL, Great Ormond St Inst Child Hlth, Genet & Genom Med, London WC1N 1EH, England

[5] Aligning Sci Parkinsons ASAP Collaborat Res Networ, Collaborat Res Network, Chevy Chase, MD 20815 USA

[6] Johns Hopkins Sch Med, Dept Biomed Engn, Baltimore, MD 21218 USA

[7] Johns Hopkins Sch Med, Dept Psychiat & Behav Sci, Baltimore, MD 21205 USA

[8] Johns Hopkins Sch Med, Dept Neurol, Baltimore, MD 21205 USA

[9] Johns Hopkins Univ, Dept Comp Sci, Baltimore, MD 21218 USA

[10] Johns Hopkins Sch Med, Dept Genet Med, Baltimore, MD 21205 USA

[11] Johns Hopkins Univ, Malone Ctr Engn Healthcare, Baltimore, MD 21218 USA

[12] UCL, NIHR Great Ormond St Hosp Biomed Res Ctr, London WC1N 1EH, England

[13] Johns Hopkins Univ, Ctr Computat Biol, Baltimore, MD 21205 USA

[14] Johns Hopkins Univ, Johns Hopkins Kavli Neurosci Discovery Inst, Baltimore, MD 21218 USA

来源：

SCIENCE | 2024年 / 384卷 / 6698期

关键词：

GENE-EXPRESSION; FUNCTIONAL NEUROANATOMY; SCHIZOPHRENIA; VISUALIZATION; BRAIN;

D O I：

10.1126/science.adh1938

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

The molecular organization of the human neocortex historically has been 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. 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. 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 mapped the enrichment of cell types and genes associated with neuropsychiatric disorders to discrete spatial domains

引用

页数：13

共 50 条

[1] Single-Cell Transcriptomic Map of the Human and Mouse Bladders
Yu, Zhenyuan
Liao, Jinling
Chen, Yang
Zou, Chunlin
Zhang, Haiying
Cheng, Jiwen
Liu, Deyun
Li, Tianyu
Zhang, Qingyun
Li, Jiaping
Yang, Xiaobo
Ye, Yu
Huang, Zhiguang
Long, Xinyang
Yang, Rirong
Mo, Zengnan
[J]. JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY, 2019, 30 (11): : 2159 - 2176
[2] WebAtlas pipeline for integrated single-cell and spatial transcriptomic data
Li, Tong
Horsfall, David
Basurto-Lozada, Daniela
Roberts, Kenny
Prete, Martin
Lawrence, John E. G.
He, Peng
Tuck, Elisabeth
Moore, Josh
Yoldas, Aybuke Kupcu
Babalola, Kolawole
Hartley, Matthew
Ghazanfar, Shila
Teichmann, Sarah A.
Haniffa, Muzlifah
Bayraktar, Omer Ali
[J]. NATURE METHODS, 2024,
[3] Single-cell transcriptomic and spatial landscapes of the developing human pancreas
Olaniru, Oladapo Edward
Kadolsky, Ulrich
Kannambath, Shichina
Vaikkinen, Heli
Fung, Kathy
Dhami, Pawan
Persaud, Shanta J.
[J]. CELL METABOLISM, 2023, 35 (01) : 184 - U22
[4] Scientists Map Single-Cell Spatial Distribution Atlas of Macaque Cortex
SUN Yidi
[J]. Bulletin of the Chinese Academy of Sciences, 2023, 37 (03) : 182 - 184
[5] Spatial transcriptomic survey of human embryonic cerebral cortex by single-cell RNA-seq analysis
Xiaoying Fan
Ji Dong
Suijuan Zhong
Yuan Wei
Qian Wu
Liying Yan
Jun Yong
Le Sun
Xiaoye Wang
Yangyu Zhao
Wei Wang
Jie Yan
Xiaoqun Wang
Jie Qiao
Fuchou Tang
[J]. Cell Research, 2018, 28 : 730 - 745
[6] Spatial transcriptomic survey of human embryonic cerebral cortex by single-cell RNA-seq analysis
Fan, Xiaoying
Dong, Ji
Zhong, Suijuan
Wei, Yuan
Wu, Qian
Yan, Liying
Yong, Jun
Sun, Le
Wang, Xiaoye
Zhao, Yangyu
Wang, Wei
Yan, Jie
Wang, Xiaoqun
Qiao, Jie
Tang, Fuchou
[J]. CELL RESEARCH, 2018, 28 (07) : 730 - 745
[7] Astrocyte layers in the mammalian cerebral cortex revealed by a single-cell in situ transcriptomic map
Omer Ali Bayraktar
Theresa Bartels
Staffan Holmqvist
Vitalii Kleshchevnikov
Araks Martirosyan
Damon Polioudakis
Lucile Ben Haim
Adam M. H. Young
Mykhailo Y. Batiuk
Kirti Prakash
Alexander Brown
Kenny Roberts
Mercedes F. Paredes
Riki Kawaguchi
John H. Stockley
Khalida Sabeur
Sandra M. Chang
Eric Huang
Peter Hutchinson
Erik M. Ullian
Martin Hemberg
Giovanni Coppola
Matthew G. Holt
Daniel H. Geschwind
David H. Rowitch
[J]. Nature Neuroscience, 2020, 23 : 500 - 509
[8] Astrocyte layers in the mammalian cerebral cortex revealed by a single-cell in situ transcriptomic map
Bayraktar, Omer Ali
Bartels, Theresa
Holmqvist, Staffan
Kleshchevnikov, Vitalii
Martirosyan, Araks
Polioudakis, Damon
Ben Haim, Lucile
Young, Adam M. H.
Batiuk, Mykhailo Y.
Prakash, Kirti
Brown, Alexander
Roberts, Kenny
Paredes, Mercedes F.
Kawaguchi, Riki
Stockley, John H.
Sabeur, Khalida
Chang, Sandra M.
Huang, Eric
Hutchinson, Peter
Ullian, Erik M.
Hemberg, Martin
Coppola, Giovanni
Holt, Matthew G.
Geschwind, Daniel H.
Rowitch, David H.
[J]. NATURE NEUROSCIENCE, 2020, 23 (04) : 500 - +
[9] Drawing the Developmental Landscape of the Human Prefrontal Cortex by Single-cell RNAseq
WANG Xiaoqun
[J]. Bulletin of the Chinese Academy of Sciences, 2018, 32 (01) : 50 - 50
[10] Benchmarking data-driven filtering for denoising of TCRpMHC single-cell data
Montemurro, Alessandro
Povlsen, Helle Rus
Jessen, Leon Eyrich
Nielsen, Morten
[J]. SCIENTIFIC REPORTS, 2023, 13 (01):

← 1 2 3 4 5 →