PUBLICATION
Single-nucleus chromatin landscapes during zebrafish early embryogenesis
- Authors
- Lin, X., Yang, X., Chen, C., Ma, W., Wang, Y., Li, X., Zhao, K., Deng, Q., Feng, W., Ma, Y., Wang, H., Zhu, L., Sahu, S.K., Chen, F., Zhang, X., Dong, Z., Liu, C., Liu, L., Liu, C.
- ID
- ZDB-PUB-230720-42
- Date
- 2023
- Source
- Scientific data 10: 464464 (Journal)
- Registered Authors
- Dong, Zhiqiang
- Keywords
- none
- MeSH Terms
-
- Animals
- Cell Differentiation/genetics
- Cell Nucleus/metabolism
- Chromatin*/genetics
- Chromatin*/metabolism
- Embryonic Development/genetics
- Zebrafish*/genetics
- Zebrafish*/metabolism
- PubMed
- 37468546 Full text @ Sci Data
Citation
Lin, X., Yang, X., Chen, C., Ma, W., Wang, Y., Li, X., Zhao, K., Deng, Q., Feng, W., Ma, Y., Wang, H., Zhu, L., Sahu, S.K., Chen, F., Zhang, X., Dong, Z., Liu, C., Liu, L., Liu, C. (2023) Single-nucleus chromatin landscapes during zebrafish early embryogenesis. Scientific data. 10:464464.
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.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping