About the Research
Research Theme
Physics of gene regulation
Keyword
Gene regulation, transcription, phase separation, DNA(chromatin), interface, cell differentiation and reprogramming
Research Outline
Multicelluar organism is composed of many different types of cells although these cells have the same DNA. The specificity of cells is determined by which genes are actively expressed and which genes are repressed. We are theoretically analyzing how the dynamics of gene expression is regulated by the structure and dynamics of DNA (chromatin), RNA, and associating proteins. We are also extending our research to the physics involved in DNA replication, mitosis, and RNA splicing.
Representative Research Achievements
- Slow chromatin dynamics enhances promoter accessibility to transcriptional condensates
Tetsuya Yamamoto, Takahiro Sakaue, Helmut Schiessel, Nucleic Acids Research, 2021, 49, 5017-5027
DOI: 10.1093/nar/gkab275 - Paraspeckles are constructed as block copolymer micelles
Tomohiro Yamazaki, Tetsuya Yamamoto, Hyura Yoshino, Sylvie Souquere, Shinichi Nakagawa, Gerard Pierron, Tetsuro Hirose, EMBO J, 2021, e107270
DOI: 10.15252/embj.2020107270 - Phase separation driven by production of architectural RNA transcripts
Tetsuya Yamamoto, Tomohiro Yamazaki, Tetsuro Hirose, Soft Matter, 2020, 16, 4692-4698
DOI: 10.1039/C9SM02458A - Osmotic mechanism of the loop extrusion process
Tetsuya Yamamoto, Helmut Schiessel, PHYSICAL REVIEW E, 2017, 96, 030402(R)
DOI: 10.1103/PhysRevE.96.030402 -
Transcription rates in DNA brushes
Tetsuya Yamamoto, S. A. Safran, Soft Matter, 2015, 11, 3017-3021
DOI: 10.1039/C4SM02871F