Springer Nature is making SARS-CoV-2 and COVID-19 research free. View research | View latest news | Sign up for updates

Session 1SEA—physics of chromatin dynamics at the 57th Biophysical Society of Japan meeting

This is a preview of subscription content, log in to check access.

Fig. 1


  1. Adachi K, Kawaguchi K (2019) Chromatin state switching in a polymer model with mark-conformation coupling. Phys Rev E 100, 060401(R)

  2. Brandani GB, Takada S (2018) Chromatin remodelers couple inchworm motion with twist-defect formation to slide nucleosomal DNA. PLoS Comput Biol 14:e1006512

  3. Brandani GB, Niina T, Tan C, Takada S (2018) DNA sliding in nucleosomes via twist defect propagation revealed by molecular simulations. Nucleic Acids Res 46:2788–2801

  4. Ito Y, Sakata-Sogawa K, Tokunaga M (2017) Multi-color single-molecule tracking and subtrajectory analysis for quantification of spatiotemporal dynamics and kinetics upon T cell activation. Sci Rep 7:6994

  5. Levens D, Baranello L, Kouzine F (2016) Controlling gene expression by DNA mechanics: emerging insights and challenges. Biophys Rev 8:259–268

  6. Matsushima Y, Sakamoto N, Awazu A (2019) Insulator activities of nucleosome-excluding DNA sequences without bound chromatin looping proteins. J Phys Chem B 123:1035–1043

  7. Misteli T (2007) Beyond the sequence: cellular organization of genome function. Cell 128:787–800

  8. Nagashima R, Hibino K, Ashwin SS, Babokhov M, Fujishiro S, Imai R, Nozaki T, Tamura S, Tani T, Kimura H, Shribak M, Kanemaki MT, Sasai M, Maeshima K (2019) Single nucleosome imaging reveals loose genome chromatin networks via active RNA polymerase II. J Cell Biol 218:1511–1530

  9. Put S, Sakaue T, Vanderzande C (2019) Active dynamics and spatially coherent motion in chromosomes subject to enzymatic force dipoles. Phys Rev E 99:032421

  10. Sakaue T (2018) Topological free volume and quasi-glassy dynamics in the melt of ring polymers. Soft Matter 14:7507–7515

  11. Sakaue T, Saito T (2016) Active diffusion of model chromosomal loci driven by athermal noise. Soft Matter 13:81–87

  12. Yamamoto T, Safran SA (2015) Transcription rates in DNA brushes. Soft Matter 11:3017–3021

  13. Yamamoto T, Schiessel H (2016) Transcription driven phase separation in chromatin brush. Langmuir 32:3036–3044

  14. Yamamoto T, Schiessel H (2017) Transcription dynamics stabilizes nucleus-like layer structure in chromatin brush. Soft Matter 13:5307–5316

  15. Zinchenko A, Hiramatsu H, Yamaguchi H, Kubo K, Murata S, Kanbe T, Hazemoto N, Yoshikawa K, Akitaya T (2019) Amino acid sequence of oligopeptide causes marked difference in DNA compaction and transcription. Biophys J 116:1836–1844

Download references


The authors thank all the speakers of the session and Hiroshi Kimura (Tokyo Institute of Technology) for their comments on the manuscript.


This session was co-sponsored by Grant-in-Aid for Scientific Research on Innovative Areas “Chromatin Potential” (JP18H05526, JP18H05527, and JP18H05529) of the Ministry of Education, Culture, Sports, Science and Technology (MEXT), Japan.

Author information

Correspondence to Akatsuki Kimura.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

This article does not contain any studies with human participants or animals performed by any of the authors.

Additional information

Publisher’s note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Rights and permissions

Reprints and Permissions

About this article

Verify currency and authenticity via CrossMark

Cite this article

Ito, Y., Kimura, A. Session 1SEA—physics of chromatin dynamics at the 57th Biophysical Society of Japan meeting. Biophys Rev (2020). https://doi.org/10.1007/s12551-020-00642-3

Download citation