A data-driven single-cell and spatial transcriptomic map of the human prefrontal cortex-Reference-Cited by-同舟云学术

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

Published:2024-05-24 Issue:6698 Volume:384 Page:
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Huuki-Myers Louise A.¹^ORCID,Spangler Abby¹^ORCID,Eagles Nicholas J.¹^ORCID,Montgomery Kelsey D.¹^ORCID,Kwon Sang Ho¹²^ORCID,Guo Boyi³^ORCID,Grant-Peters Melissa⁴⁵^ORCID,Divecha Heena R.¹,Tippani Madhavi¹^ORCID,Sriworarat Chaichontat¹²^ORCID,Nguyen Annie B.¹^ORCID,Ravichandran Prashanthi⁶^ORCID,Tran Matthew N.¹,Seyedian Arta¹^ORCID, ,Hyde Thomas M.¹⁷⁸^ORCID,Kleinman Joel E.¹⁷^ORCID,Battle Alexis⁶⁹¹⁰¹¹^ORCID,Page Stephanie C.¹⁷^ORCID,Ryten Mina⁴⁵¹²^ORCID,Hicks Stephanie C.³⁶¹¹¹³^ORCID,Martinowich Keri¹²⁷¹⁴^ORCID,Collado-Torres Leonardo¹³¹³^ORCID,Maynard Kristen R.¹²⁷^ORCID,Akbarian Schahram,Abyzov Alexej,Ahituv Nadav,Arasappan Dhivya,Almagro Armenteros Jose Juan,Beliveau Brian J.,Bendl Jaroslav,Berretta Sabina,Bharadwaj Rahul A.,Bhattacharya Arjun,Bicks Lucy,Brennand Kristen,Capauto Davide,Champagne Frances A.,Chatterjee Tanima,Chatzinakos Chris,Chen Yuhang,Chen H. Isaac,Cheng Yuyan,Cheng Lijun,Chess Andrew,Chien Jo-fan,Chu Zhiyuan,Clarke Declan,Clement Ashley,Collado-Torres Leonardo,Cooper Gregory M.,Crawford Gregory E.,Dai Rujia,Daskalakis Nikolaos P.,Davila-Velderrain Jose,Deep-Soboslay Amy,Deng Chengyu,DiPietro Christopher P.,Dracheva Stella,Drusinsky Shiron,Duan Ziheng,Duong Duc,Dursun Cagatay,Eagles Nicholas J.,Edelstein Jonathan,Emani Prashant S.,Fullard John F.,Galani Kiki,Galeev Timur,Gandal Michael J.,Gaynor Sophia,Gerstein Mark,Geschwind Daniel H.,Girdhar Kiran,Goes Fernando S.,Greenleaf William,Grundman Jennifer,Guo Hanmin,Guo Qiuyu,Gupta Chirag,Hadas Yoav,Hallmayer Joachim,Han Xikun,Haroutunian Vahram,Hawken Natalie,He Chuan,Henry Ella,Hicks Stephanie C.,Ho Marcus,Ho Li-Lun,Hoffman Gabriel E.,Huang Yiling,Huuki-Myers Louise A.,Hwang Ahyeon,Hyde Thomas M.,Iatrou Artemis,Inoue Fumitaka,Jajoo Aarti,Jensen Matthew,Jiang Lihua,Jin Peng,Jin Ting,Jops Connor,Jourdon Alexandre,Kawaguchi Riki,Kellis Manolis,Kleinman Joel E.,Kleopoulos Steven P.,Kozlenkov Alex,Kriegstein Arnold,Kundaje Anshul,Kundu Soumya,Lee Cheyu,Lee Donghoon,Li Junhao,Li Mingfeng,Lin Xiao,Liu Shuang,Liu Jason,Liu Jianyin,Liu Chunyu,Liu Shuang,Lou Shaoke,Loupe Jacob M.,Lu Dan,Ma Shaojie,Ma Liang,Margolis Michael,Mariani Jessica,Martinowich Keri,Maynard Kristen R.,Mazariegos Samantha,Meng Ran,Myers Richard M.,Micallef Courtney,Mikhailova Tatiana,Ming Guo-li,Mohammadi Shahin,Monte Emma,Montgomery Kelsey S.,Moore Jill E.,Moran Jennifer R.,Mukamel Eran A.,Nairn Angus C.,Nemeroff Charles B.,Ni Pengyu,Norton Scott,Nowakowski Tomasz,Omberg Larsson,Page Stephanie C.,Park Saejeong,Patowary Ashok,Pattni Reenal,Pertea Geo,Peters Mette A.,Phalke Nishigandha,Pinto Dalila,Pjanic Milos,Pochareddy Sirisha,Pollard Katherine S.,Pollen Alex,Pratt Henry,Przytycki Pawel F.,Purmann Carolin,Qin Zhaohui S.,Qu Ping-Ping,Quintero Diana,Raj Towfique,Rajagopalan Ananya S.,Reach Sarah,Reimonn Thomas,Ressler Kerry J.,Ross Deanna,Roussos Panos,Rozowsky Joel,Ruth Misir,Ruzicka W. Brad,Sanders Stephan J.,Schneider Juliane M.,Scuderi Soraya,Sebra Robert,Sestan Nenad,Seyfried Nicholas,Shao Zhiping,Shedd Nicole,Shieh Annie W.,Shin Joo Heon,Skarica Mario,Snijders Clara,Song Hongjun,State Matthew W.,Stein Jason,Steyert Marilyn,Subburaju Sivan,Sudhof Thomas,Snyder Michael,Tao Ran,Therrien Karen,Tsai Li-Huei,Urban Alexander E.,Vaccarino Flora M.,van Bakel Harm,Vo Daniel,Voloudakis Georgios,Wamsley Brie,Wang Tao,Wang Sidney H.,Wang Daifeng,Wang Yifan,Warrell Jonathan,Wei Yu,Weimer Annika K.,Weinberger Daniel R.,Wen Cindy,Weng Zhiping,Whalen Sean,White Kevin P.,Willsey A. Jeremy,Won Hyejung,Wong Wing,Wu Hao,Wu Feinan,Wuchty Stefan,Wylie Dennis,Xu Siwei,Yap Chloe X.,Zeng Biao,Zhang Pan,Zhang Chunling,Zhang Bin,Zhang Jing,Zhang Yanqiong,Zhou Xiao,Ziffra Ryan,Zeier Zane R.,Zintel Trisha M.

Affiliation:

1. Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD 21205, USA.

2. The Solomon H. Snyder Department of Neuroscience, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

3. Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA.

4. Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London WC1N 1EH, UK.

5. Aligning Science Across Parkinson’s (ASAP) Collaborative Research Network, Chevy Chase, MD 20815, USA.

6. Department of Biomedical Engineering, Johns Hopkins School of Medicine, Baltimore, MD 21218, USA.

7. Department of Psychiatry and Behavioral Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

8. Department of Neurology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

9. Department of Computer Science, Johns Hopkins University, Baltimore, MD 21218, USA.

10. Department of Genetic Medicine, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

11. Malone Center for Engineering in Healthcare, Johns Hopkins University, Baltimore, MD 21218, USA.

12. NIHR Great Ormond Street Hospital Biomedical Research Centre, University College London, London WC1N 1EH, UK.

13. Center for Computational Biology, Johns Hopkins University, Baltimore, MD 21205, USA.

14. Johns Hopkins Kavli Neuroscience Discovery Institute, Johns Hopkins University, Baltimore, MD 21218, USA.

Abstract

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.

Publisher

American Association for the Advancement of Science (AAAS)

Link

https://www.science.org/doi/pdf/10.1126/science.adh1938

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