3D structure of individual mammalian genomes studied by single cell Hi-C
By T. Stevens, D. Lando, Srinjan Basu, Liam P. Atkinson, Y. Cao, Steven F. Lee, M. Leeb, Kai Wohlfahrt, Wayne Boucher, Aoife O’Shaughnessy-Kirwan and 13 more. Nature, 2017
748 citations recorded by the source corpus.
The folding of genomic DNA from the beads-on-a-string-like structure of nucleosomes into higher-order assemblies is crucially linked to nuclear processes. Here we calculate 3D structures of entire mammalian genomes using data from a new chromosome conformation capture procedure that allows us to first image and then process single cells. The technique enables genome folding to be examined at a scale of less than 100 kb, and chromosome structures to be validated. The structures of individual topological-associated domains and loops vary substantially from cell to cell. By contrast, A and B compartments, lamina-associated domains and active enhancers and promoters are organized in a consistent way on a genome-wide basis in every cell, suggesting that they could drive chromosome and genome folding. By studying genes regulated by pluripotency factor and nucleosome remodelling deacetylase (NuRD), we illustrate how the determination of single-cell genome structure provides a new approach for investigating biological processes.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/e0ef27d4d2ca9c6a1d8602317295298a562e2478
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In Molecular Biology
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- F. Alexander Wolf
Citations in the corpus
- Gene regulatory network inference in the era of single-cell multi-omics (2023, background): “Despite some high-throughput alternatives 167,168 , chromosome conformation capture techniques pose new challenges owing to their sparse nature 169 and the facts that they still require integration with other modalities and their protocol can be hard to reproduce 170,171 .”
- Fundamental limits on dynamic inference from single-cell snapshots (2017, background): “Rapidly maturing technologies are also enabling single-cell measurements of the epigenome (4), the proteome (5, 6), and the spatial organization of chromatin (7).”