ArticleScientific data2023
Single-nucleus chromatin landscapes during zebrafish early embryogenesis.
Article in Scientific data, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Single-cell chromatin accessibility landscape profiling reveals the diversity of epigenetic regulation in the rat nervous system.Scientific data · 2025Article
- Monitoring of single-nucleus chromatin landscape of ischemic stroke in mouse cerebral cortex across time.Scientific data · 2025Article
- Co-profiling of single-cell gene expression and chromatin landscapes in stickleback pituitary.Scientific data · 2025Article
- Protocol to profile snATAC-seq datasets and motif enrichment analysis during zebrafish early embryogenesis.STAR protocols · 2024Article
- The chromatin accessibility dynamics during cell fate specifications in zebrafish early embryogenesis.Nucleic acids research · 2024Article
- Single-nucleus chromatin landscapes during zebrafish early embryogenesis.Scientific data · 2023Article
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Authors and funding
19 authors.
Funding
Abstract
Vertebrate embryogenesis is a remarkable process, during which numerous cell types of different lineages arise within a short time frame. An overwhelming challenge to understand this process is the lack of dynamic chromatin accessibility information to correlate cis-regulatory elements (CREs) and gene expression within the hierarchy of cell fate decisions. Here, we employed single-nucleus ATAC-seq to generate a chromatin accessibility dataset on the first day of zebrafish embryogenesis, including 3.3 hpf, 5.25 hpf, 6 hpf, 10 hpf, 12 hpf, 18 hpf and 24 hpf, obtained 51,620 high-quality nuclei and 23 clusters. Furthermore, by integrating snATAC-seq data with single-cell RNA-seq data, we described the dynamics of chromatin accessibility and gene expression across developmental time points, which validates the accuracy of the chromatin landscape data. Together, our data could serve as a fundamental resource for revealing the epigenetic regulatory mechanisms of zebrafish embryogenesis.
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Registered trials
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