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Tracing the evolution of single-cell 3D genomes in Kras-driven cancers

ABSTRACT: Tracing the evolution of single-cell 3D genomes in Kras-driven cancers

PROVIDER: PRJNA1256505 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR33345170_1.fastq.gz	Fastqsanger.gz
	SRR33345170_2.fastq.gz	Fastqsanger.gz
	SRR33345171_1.fastq.gz	Fastqsanger.gz
	SRR33345171_2.fastq.gz	Fastqsanger.gz
	SRR33345172_1.fastq.gz	Fastqsanger.gz

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Tracing the evolution of single-cell 3D genomes in Kras-driven cancers

Project description:Although three-dimensional (3D) genome structures are altered in cancer cells, little is known about how these changes evolve and diversify during cancer progression. Leveraging genome-wide chromatin tracing to visualize 3D genome folding directly in tissues, we generated 3D genome cancer atlases of oncogenic Kras-driven murine lung and pancreatic adenocarcinoma. Our data reveal stereotypical, non-monotonic, and stage-specific alterations in 3D genome folding compaction, heterogeneity, and compartmentalization as cancers progress from normal to preinvasive and ultimately to invasive tumors, discovering a potential structural bottleneck in early tumor progression. Remarkably, 3D genome architectures distinguish morphologic cancer states in single cells, despite considerable cell-to-cell heterogeneity. Gene-level analyses of evolutionary changes in 3D genome compartmentalization not only showed that compartment-associated genes are more homogeneously regulated but also elucidated prognostic and dependency genes in lung adenocarcinoma and a previously unappreciated role for polycomb-group protein Rnf2 in 3D genome regulation. Our results demonstrate the utility of mapping the single-cell cancer 3D genome in tissues and illuminate its potential to identify new diagnostic, prognostic, and therapeutic biomarkers in cancer.

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Tracing the evolution of single-cell 3D genomes in Kras-driven cancers [snRNA-seq]

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Tracing the evolution of single-cell 3D genomes in Kras-driven cancers

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