ArticleCommunications biology2025
Single cell multiomics approach to analyze replication timing and gene expression in mouse preimplantation embryos.
Article in Communications biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Decoding DNA metabolism and its clinical relevance through the lens of high-throughput sequencing assays.Medical review (2021) · 2026Review
- Personalized Morphology, Replication Timing, and RNA based Gene Expression Networks for Basal-like and Classical subtyping genes in Pancreatic Adenocarcinoma.bioRxiv : the preprint server for biology · 2026Article
- Article
- The long-standing relationship between replication timing, gene expression, and chromatin accessibility is maintained in early mouse embryogenesis.bioRxiv : the preprint server for biology · 2025Article
- Single cell multiomics approach to analyze replication timing and gene expression in mouse preimplantation embryos.Communications biology · 2025Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Analysis of a cell's replication timing (RT) provides insight into how genes replicate, early or late, during the S-phase of the cell cycle. RT is cell-type specific, inheritable, and has been correlated to gene expression in normal and diseased states. However, most studies have been limited to somatic cells. Very little is known about RT control in early mouse embryos, and how it correlates with the start of transcription during zygote gene activation (ZGA), at the 2-cell stage. In this study, we develop an in-house single-cell multiomics approach to simultaneously analyze RT and gene expression in individual cells of the mouse 1-cell, 2-cell, and 4-cell embryos. We detect that RT is established at the 1-cell stage prior to ZGA. Surprisingly, we observe that the coordinated RT and gene expression control is different in early totipotent embryos, compared to previously published studies in somatic cells. Late replicating regions correlate with higher gene expression and open chromatin in the early developing embryos. Lastly, we perform an integrated pseudo time trajectory analysis combining RT and gene expression information per cell.
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Registered trials
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