Accession GMS-58-4 

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Submit date2022-01-25 17:08:25
Last update date2023-01-11 16:30:37
olpUSER1.2017 AT
The University of Tokyo
Total file size7.22 MB
Keywords DNA  Chromatin  RNA 
Experiment type Ministry of Education, Culture, Sports, Science and Technology
Summary Since the discovery of DNA double helix, genome study has been expanded and our knowledge of the genome was enormously progressed; Meanwhile whole genome has been sequenced in many model organisms and nowadays genome editing technology is widely and rapidly spread. The past genome researches have mainly forced on its informational aspects, such as replication, repair, recombination, and division of the genomic information and further highlighted epigenetic regulations to explain genetic phenomena. On the other hand, physical properties of the DNA, such as stiffness, torsion, supercoiling and so on, have been much less understood, although it is the most important properties directly affecting the genome structure. In this project, we focus on physical properties of DNA/chromatin/genome to understand how the genome builds its functional structure.
Cell (Tissue) GenomeModality

Objects of this project range

 from nano-scale DNA/nucleosome structures to organisms (Figure 1). Regulators of genome modality would include nucleoplasmic/cytoplasmic environments, physical properties of proteins, and physicochemical reactions such as liquid-liquid phase separation, as well as physical properties of DNA. How do they regulate genome modality in each scale and define chromosome- or chromatin-dynamics, and how does dysfunction of the factors result in disorganization of cellular functions and causes diseases? We will address these questions from different approaches including theoretical physics, measurements of biophysical properties, reconstitutions, and genomics as well. In the framework, there are 3 major categories as follows.
  • A01: Physics of genome modality, where we uncover nano-scale genome structure and properties, and also build multi-scale theoretical model of the genome.
  • A02: Meso-scale genome modality, where we focus on meso-scale structure including nucleosome, DNA loops, and chromatin fibers/domains, and figure out how these structures are formed. 
  • A03: Disorders of genome modality, where we address the questions how dysfunction of genome modality-regulating factors causes diseases.
Data processing NGS
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MultiScale_Modals.mp4 (7.13 MB)

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