Genomic DNA, which is the source of heredity in all living organisms, is highly compacted in three dimensions (3D) in the cell nucleus. Understanding the regulatory principles of the 3D genome organization is extremely important for life science in general because it would lead to a fundamental understanding of various genome functions such as gene expression. How is the 3D genome organization established and maintained in a cell-type specific manner in various cell types that constitute an organism? How does the 3D genome organization change when cells change their character during development, growth, and differentiation? To answer these questions, our research centers around the regulation of DNA replication, which is known to reflect the 3D genome organization. In particular, we utilize our homemade scRepli-seq method, a single-cell genome-wide DNA replication sequencing technology, and combine it with Hi-C, a genome-wide method to analyze the 3D genome organization. By using a variety of materials from early mouse embryos to cultured cells, we are tackling the aforementioned problems at the single-cell level.
Single-cell genome-wide DNA replication sequencing (scRepli-seq) data
- Developmental dynamics of the 3D genome organization and DNA replication
- Regulatory mechanisms of 3D genome organization
- Development of single-cell genome-wide technologies for studies of the 3D genome organization