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将单细胞和单细胞核基因组学应用于神经系统中细胞异质性和细胞命运转变的研究。

Applying single-cell and single-nucleus genomics to studies of cellular heterogeneity and cell fate transitions in the nervous system.

作者信息

Adameyko Igor, Bakken Trygve, Bhaduri Aparna, Chhatbar Chintan, Filbin Mariella G, Gate David, Hochgerner Hannah, Kim Chang Nam, Krull Jordan, La Manno Gioele, Li Qingyun, Linnarsson Sten, Ma Qin, Mayer Christian, Menon Vilas, Nano Patricia, Prinz Marco, Quake Steve, Walsh Christopher A, Yang Jin, Bayraktar Omer Ali, Gokce Ozgun, Habib Naomi, Konopka Genevieve, Liddelow Shane A, Nowakowski Tomasz J

机构信息

Department of Neuroimmunology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.

Department of Physiology and Pharmacology, Karolinska Institutet, Stockholm, Sweden.

出版信息

Nat Neurosci. 2024 Dec;27(12):2278-2291. doi: 10.1038/s41593-024-01827-9. Epub 2024 Dec 3.

DOI:10.1038/s41593-024-01827-9
PMID:39627588
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11949301/
Abstract

Single-cell and single-nucleus genomic approaches can provide unbiased and multimodal insights. Here, we discuss what constitutes a molecular cell atlas and how to leverage single-cell omics data to generate hypotheses and gain insights into cell transitions in development and disease of the nervous system. We share points of reflection on what to consider during study design and implementation as well as limitations and pitfalls.

摘要

单细胞和单细胞核基因组方法能够提供无偏差的多模态见解。在此,我们将探讨什么构成分子细胞图谱,以及如何利用单细胞组学数据来生成假设并深入了解神经系统发育和疾病中的细胞转变。我们分享在研究设计和实施过程中需要考虑的要点,以及局限性和陷阱。

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本文引用的文献

1
Mapping lineage-traced cells across time points with moslin.使用 moslin 对时间点上的谱系追踪细胞进行映射。
Genome Biol. 2024 Oct 21;25(1):277. doi: 10.1186/s13059-024-03422-4.
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A single-cell time-lapse of mouse prenatal development from gastrula to birth.单细胞延时拍摄的 从囊胚到出生的 小鼠产前发育过程。
靶向酪氨酸激酶2以靶向tau蛋白。
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Time-resolved single-cell transcriptomics defines immune trajectories in glioblastoma.时间分辨单细胞转录组学定义胶质母细胞瘤中的免疫轨迹。
Cell. 2024 Jan 4;187(1):149-165.e23. doi: 10.1016/j.cell.2023.11.032. Epub 2023 Dec 21.
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The molecular cytoarchitecture of the adult mouse brain.成年鼠脑的分子细胞构筑。
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Transcriptomic diversity of cell types across the adult human brain.成人脑中细胞类型的转录组多样性。
Science. 2023 Oct 13;382(6667):eadd7046. doi: 10.1126/science.add7046.
8
A marmoset brain cell census reveals regional specialization of cellular identities.狨猴脑细胞普查揭示了细胞特征的区域专业化。
Sci Adv. 2023 Oct 13;9(41):eadk3986. doi: 10.1126/sciadv.adk3986. Epub 2023 Oct 12.
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Early Alzheimer's disease pathology in human cortex involves transient cell states.人类大脑皮层中的早发性阿尔茨海默病病理学涉及短暂的细胞状态。
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Single-cell lineage capture across genomic modalities with CellTag-multi reveals fate-specific gene regulatory changes.单细胞谱系捕获跨基因组模态与 CellTag-multi 揭示命运特异性基因调控变化。
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