.png){kind=icon}
Return
Kronos scRT: a uniform framework for single-cell replication timing analysis
.png){kind=icon}
OA
AI
DOI：10.1038/s41467-022-30043-x.png)
.png){kind=icon}
.png){kind=icon}
Share.png){kind=icon}
Save
Abstract
En 中文
A scalable approach to explore DNA replication in single cells reveals that although aneuploidy does not have a major impact on the pattern of replication, different cell types and sub-populations display distinguished replication paths. Mammalian genomes are replicated in a cell type-specific order and in coordination with transcription and chromatin organization. Currently, single-cell replication studies require individual processing of sorted cells, yielding a limited number (<100) of cells. Here, we develop Kronos scRT, a software for single-cell Replication Timing (scRT) analysis. Kronos scRT does not require a specific platform or cell sorting, which allows investigating large datasets obtained from asynchronous cells. By applying our tool to published data as well as droplet-based single-cell whole-genome sequencing data generated in this study, we exploit scRT from thousands of cells for different mouse and human cell lines. Our results demonstrate that although genomic regions are frequently replicated around their population average RT, replication can occur stochastically throughout S phase. Altogether, Kronos scRT allows fast and comprehensive investigations of the RT programme at the single-cell resolution for both homogeneous and heterogeneous cell populations.
Keywords:
DNA-REPLICATION
MUTATIONAL LANDSCAPES
DEVELOPMENTAL CONTROL
CHROMOSOMAL DOMAINS
ORIGINS
ORGANIZATION
INITIATION
CANCER
AI Summary
Key information extracted from the uploaded paper, including a brief overview, abstract, background, key highlights, visual analysis, and future outlook.
Journal
IF:
15.7
Papers:
9.4W
Citations:
91.2W
Organization
Cited Papers
High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell.png)
NATURE BIOTECHNOLOGYOAAI
NATURE BIOTECHNOLOGYIF41.7
OAAIShareSaveEvolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell typesGENOME RESEARCH
OAAI
GENOME RESEARCHIF5.5
OAAIShareSaveShareSaveQuantitative BrdU immunoprecipitation method demonstrates that Fkh1 and Fkh2 are rate-limiting activators of replication origins that reprogram replication timing in G1 phaseGENOME RESEARCHOAAI
GENOME RESEARCHIF5.5
OAAIShareSaveDNA replication timing and long-range DNA interactions predict mutational landscapes of cancer genomesNATURE BIOTECHNOLOGYOAAI
NATURE BIOTECHNOLOGYIF41.7
OAAIShareSaveShareSaveShareSaveShareSave
View more