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000273924 1001_ $$aBonev, Boyan$$b0
000273924 245__ $$aOpportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery.
000273924 260__ $$aNew York, NY$$bNature America$$c2024
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000273924 520__ $$aOver the past decade, single-cell genomics technologies have allowed scalable profiling of cell-type-specific features, which has substantially increased our ability to study cellular diversity and transcriptional programs in heterogeneous tissues. Yet our understanding of mechanisms of gene regulation or the rules that govern interactions between cell types is still limited. The advent of new computational pipelines and technologies, such as single-cell epigenomics and spatially resolved transcriptomics, has created opportunities to explore two new axes of biological variation: cell-intrinsic regulation of cell states and expression programs and interactions between cells. Here, we summarize the most promising and robust technologies in these areas, discuss their strengths and limitations and discuss key computational approaches for analysis of these complex datasets. We highlight how data sharing and integration, documentation, visualization and benchmarking of results contribute to transparency, reproducibility, collaboration and democratization in neuroscience, and discuss needs and opportunities for future technology development and analysis.
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000273924 650_2 $$2MeSH$$aSingle-Cell Analysis: methods
000273924 650_2 $$2MeSH$$aHumans
000273924 650_2 $$2MeSH$$aGenomics: methods
000273924 650_2 $$2MeSH$$aNeurosciences: methods
000273924 650_2 $$2MeSH$$aAnimals
000273924 650_2 $$2MeSH$$aEpigenomics: methods
000273924 7001_ $$00000-0003-2247-9393$$aGonçalo, Castelo-Branco$$b1
000273924 7001_ $$00000-0003-2308-3649$$aChen, Fei$$b2
000273924 7001_ $$00000-0002-7053-0520$$aCodeluppi, Simone$$b3
000273924 7001_ $$00000-0001-7465-7652$$aCorces, M Ryan$$b4
000273924 7001_ $$00000-0002-0212-5451$$aFan, Jean$$b5
000273924 7001_ $$00000-0002-6365-8673$$aHeiman, Myriam$$b6
000273924 7001_ $$00000-0002-5930-6456$$aHarris, Kenneth$$b7
000273924 7001_ $$00000-0003-0657-434X$$aInoue, Fumitaka$$b8
000273924 7001_ $$00000-0001-7113-9630$$aKellis, Manolis$$b9
000273924 7001_ $$00000-0002-0335-0730$$aLevine, Ariel$$b10
000273924 7001_ $$00000-0001-6858-7985$$aLotfollahi, Mo$$b11
000273924 7001_ $$aLuo, Chongyuan$$b12
000273924 7001_ $$00000-0003-0031-8468$$aMaynard, Kristen R$$b13
000273924 7001_ $$00000-0003-0074-9196$$aNitzan, Mor$$b14
000273924 7001_ $$aRamani, Vijay$$b15
000273924 7001_ $$aSatijia, Rahul$$b16
000273924 7001_ $$00000-0001-7142-4116$$aSchirmer, Lucas$$b17
000273924 7001_ $$00000-0001-9901-5613$$aShen, Yin$$b18
000273924 7001_ $$aSun, Na$$b19
000273924 7001_ $$aGreen, Gilad S$$b20
000273924 7001_ $$00000-0002-2419-1943$$aTheis, Fabian$$b21
000273924 7001_ $$00000-0002-3090-9894$$aWang, Xiao$$b22
000273924 7001_ $$00000-0002-5869-2391$$aWelch, Joshua D$$b23
000273924 7001_ $$0P:(DE-2719)9002754$$aGokce, Ozgun$$b24
000273924 7001_ $$00000-0002-3363-7302$$aKonopka, Genevieve$$b25
000273924 7001_ $$00000-0002-0840-1437$$aLiddelow, Shane$$b26
000273924 7001_ $$00000-0002-2794-5165$$aMacosko, Evan$$b27
000273924 7001_ $$00000-0001-6055-277X$$aBayraktar, Omer$$b28
000273924 7001_ $$00000-0002-6049-2487$$aHabib, Naomi$$b29
000273924 7001_ $$00000-0003-2345-4964$$aNowakowski, Tomasz J$$b30
000273924 773__ $$0PERI:(DE-600)1494955-6$$a10.1038/s41593-024-01806-0$$gVol. 27, no. 12, p. 2292 - 2309$$n12$$p2292 - 2309$$tNature neuroscience$$v27$$x1097-6256$$y2024
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