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Simultaneous profiling of chromatin architecture and transcription in single cells
- Source :
- Nature Structural and Molecular Biology; 20230101, Issue: Preprints p1-10, 10p
- Publication Year :
- 2023
-
Abstract
- The three-dimensional structure of chromatin plays a crucial role in development and disease, both of which are associated with transcriptional changes. However, given the heterogeneity in single-cell chromatin architecture and transcription, the regulatory relationship between the three-dimensional chromatin structure and gene expression is difficult to explain based on bulk cell populations. Here we develop a single-cell, multimodal, omics method allowing the simultaneous detection of chromatin architecture and messenger RNA expression by sequencing (single-cell transcriptome sequencing (scCARE-seq)). Applying scCARE-seq to examine chromatin architecture and transcription from 2i to serum single mouse embryonic stem cells, we observe improved separation of cell clusters compared with single-cell chromatin conformation capture. In addition, after defining the cell-cycle phase of each cell through chromatin architecture extracted by scCARE-seq, we find that periodic changes in chromatin architecture occur in parallel with transcription during the cell cycle. These findings highlight the potential of scCARE-seq to facilitate comprehensive analyses that may boost our understanding of chromatin architecture and transcription in the same single cell.
Details
- Language :
- English
- ISSN :
- 15459993 and 15459985
- Issue :
- Preprints
- Database :
- Supplemental Index
- Journal :
- Nature Structural and Molecular Biology
- Publication Type :
- Periodical
- Accession number :
- ejs63768356
- Full Text :
- https://doi.org/10.1038/s41594-023-01066-9