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Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery

Bonev, Boyan; Gonçalo, Castelo-Branco; Chen, Fei; Codeluppi, Simone; Corces, M Ryan; Fan, Jean; Heiman, Myriam; ... Nowakowski, Tomasz J; + view all (2024) Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery. Nature Neuroscience , 27 (12) pp. 2292-2309. 10.1038/s41593-024-01806-0.

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Abstract

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.

Type: Article
Title: Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery
Location: United States
DOI: 10.1038/s41593-024-01806-0
Publisher version: https://doi.org/10.1038/s41593-024-01806-0
Language: English
Additional information: This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions.
Keywords: Single-Cell Analysis, Humans, Genomics, Neurosciences, Animals, Epigenomics
UCL classification: UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology > Department of Neuromuscular Diseases
URI: https://discovery-pp.ucl.ac.uk/id/eprint/10202625
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