Kronos scRT: a uniform framework for single-cell replication timing analysis - Dynamique de l'information génétique : bases fondamentales et cancer Accéder directement au contenu
Article Dans Une Revue Nature Communications Année : 2022

Kronos scRT: a uniform framework for single-cell replication timing analysis

Résumé

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.
Fichier principal
Vignette du fichier
Gnan et al. - Nature Communications - 2022.pdf (4.75 Mo) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte

Dates et versions

hal-03840947 , version 1 (06-11-2022)

Identifiants

Citer

Stefano Gnan, Joseph M Josephides, Xia Wu, Manuela Spagnuolo, Dalila Saulebekova, et al.. Kronos scRT: a uniform framework for single-cell replication timing analysis. Nature Communications, 2022, 13 (1), pp.2329. ⟨10.1038/s41467-022-30043-x⟩. ⟨hal-03840947⟩
6 Consultations
8 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More