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001     273924
005     20250120103128.0
024 7 _ |a 10.1038/s41593-024-01806-0
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024 7 _ |a 1097-6256
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024 7 _ |a 1546-1726
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037 _ _ |a DZNE-2024-01398
041 _ _ |a English
082 _ _ |a 610
100 1 _ |a Bonev, Boyan
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245 _ _ |a Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery.
260 _ _ |a New York, NY
|c 2024
|b Nature America
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520 _ _ |a Over the past decade, single-cell genomics technologies have allowed scalable profiling of cell-type-specific features, which has substantially increased our ability to study cellular diversity and transcriptional programs in heterogeneous tissues. Yet our understanding of mechanisms of gene regulation or the rules that govern interactions between cell types is still limited. The advent of new computational pipelines and technologies, such as single-cell epigenomics and spatially resolved transcriptomics, has created opportunities to explore two new axes of biological variation: cell-intrinsic regulation of cell states and expression programs and interactions between cells. Here, we summarize the most promising and robust technologies in these areas, discuss their strengths and limitations and discuss key computational approaches for analysis of these complex datasets. We highlight how data sharing and integration, documentation, visualization and benchmarking of results contribute to transparency, reproducibility, collaboration and democratization in neuroscience, and discuss needs and opportunities for future technology development and analysis.
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650 _ 2 |a Single-Cell Analysis: methods
|2 MeSH
650 _ 2 |a Humans
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650 _ 2 |a Genomics: methods
|2 MeSH
650 _ 2 |a Neurosciences: methods
|2 MeSH
650 _ 2 |a Animals
|2 MeSH
650 _ 2 |a Epigenomics: methods
|2 MeSH
700 1 _ |a Gonçalo, Castelo-Branco
|0 0000-0003-2247-9393
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700 1 _ |a Chen, Fei
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700 1 _ |a Codeluppi, Simone
|0 0000-0002-7053-0520
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700 1 _ |a Corces, M Ryan
|0 0000-0001-7465-7652
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700 1 _ |a Fan, Jean
|0 0000-0002-0212-5451
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700 1 _ |a Heiman, Myriam
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700 1 _ |a Harris, Kenneth
|0 0000-0002-5930-6456
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700 1 _ |a Inoue, Fumitaka
|0 0000-0003-0657-434X
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700 1 _ |a Kellis, Manolis
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700 1 _ |a Levine, Ariel
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700 1 _ |a Lotfollahi, Mo
|0 0000-0001-6858-7985
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700 1 _ |a Luo, Chongyuan
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700 1 _ |a Maynard, Kristen R
|0 0000-0003-0031-8468
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700 1 _ |a Nitzan, Mor
|0 0000-0003-0074-9196
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700 1 _ |a Ramani, Vijay
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700 1 _ |a Satijia, Rahul
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700 1 _ |a Schirmer, Lucas
|0 0000-0001-7142-4116
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700 1 _ |a Shen, Yin
|0 0000-0001-9901-5613
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700 1 _ |a Sun, Na
|b 19
700 1 _ |a Green, Gilad S
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700 1 _ |a Theis, Fabian
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700 1 _ |a Wang, Xiao
|0 0000-0002-3090-9894
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700 1 _ |a Welch, Joshua D
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700 1 _ |a Gokce, Ozgun
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700 1 _ |a Konopka, Genevieve
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700 1 _ |a Liddelow, Shane
|0 0000-0002-0840-1437
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700 1 _ |a Macosko, Evan
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700 1 _ |a Bayraktar, Omer
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700 1 _ |a Habib, Naomi
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700 1 _ |a Nowakowski, Tomasz J
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773 _ _ |a 10.1038/s41593-024-01806-0
|g Vol. 27, no. 12, p. 2292 - 2309
|0 PERI:(DE-600)1494955-6
|n 12
|p 2292 - 2309
|t Nature neuroscience
|v 27
|y 2024
|x 1097-6256
856 4 _ |u https://pub.dzne.de/record/273924/files/DZNE-2024-01398_Restricted.pdf
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910 1 _ |a Deutsches Zentrum für Neurodegenerative Erkrankungen
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