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R-CCS Cafe
The 284th R-CCS Cafe (Jan 23, 2026)
The 284th R-CCS Cafe (Jan 23, 2026)
Japanese| Date | Fri, Jan 23, 2026 |
|---|---|
| Time | 3:00 pm - 4:00 pm (3:00 pm - 3:40 pm two talks, 3:40 pm - 4:00 pm Free discussion) |
| City | Kobe, Japan/Online |
| Place | Lecture Hall (6th floor) at R-CCS, Online seminar on Zoom
|
| Language | Presentation Language: English Presentation Material: English |
| Speakers |
Cheng Tan Computational Biophysics Research Team ![]() Yuki Miyazaki Computational Materials Science Research Team ![]() |
Talk Titles and Abstracts
1st Speaker: Cheng Tan
Title:
Modulation of Biomolecular Condensates Studied by Multi-Scale Molecular Dynamics Simulations
Abstract:
Biomolecules such as intrinsically disordered proteins form dynamic condensates through highly entangled networks of weak interactions. Although extensive research has elucidated their formation mechanisms, how these condensates are regulated to prevent aggregation remains unclear. Using large-scale all-atom molecular dynamics simulations (~2.5 million atoms, Fugaku), we studied TDP-43 condensates and their regulation by the highly charged protein Hero11. Hero11 reduces condensate density, increases fluidity and ion influx, and alters water dynamics. It modulates protein diffusion and promotes coupling between reduced intermolecular contacts and decreased α-helical propensity in TDP-43’s C-terminal domain, revealing mechanisms of condensate regulation.
2nd Speaker: Yuki Miyazaki
Title:
Studying one-dimensional quantum criticality via sine-square deformation
Abstract:
Sine-square deformation (SSD) is a smooth boundary modulation in which the local energy scale of the Hamiltonian is modulated by a site-dependent function, efficiently suppressing boundary effects under open boundary conditions. In this talk, we propose a method to analyze quantum critical phenomena in one-dimensional systems, based on the theoretical expectation that translational invariance of local observables in the ground state of the SSD Hamiltonian is restored at quantum critical points (QCPs). As case studies, we demonstrate our procedure using two models: the antiferromagnetic Ising chain in mixed transverse and longitudinal magnetic fields with nearest-neighbor and long-range interactions. For the nearest-neighbor model, we show that the QCP can be accurately estimated by our procedure with systems of up to 84 sites, or even smaller, in good agreement with results from the literature. For the long-range model, we show that our method also allows us to determine the phase boundary, which is found to be slightly shifted relative to the nearest-neighbor case, leading to a reduced region of antiferromagnetic order. We further examine whether this framework can be extended beyond locating QCPs to characterize critical phenomena. Our results suggest that the SSD-based framework may be useful for extracting critical exponents and analyzing scaling behavior in quantum systems.
Moreover, we propose an experimental scheme to implement the antiferromagnetic $J_1-J_2$ Ising couplings with SSD using Rydberg atom arrays in optical tweezers to a very good approximation.
Important Notes
- Please turn off your video and microphone when you join the meeting.
- The broadcasting may be interrupted or terminated depending on the network condition or any other unexpected event.
- The program schedule and contents may be modified without prior notice.
- Depending on the utilized device and network environment, it may not be able to watch the session.
- All rights concerning the broadcasted material will belong to the organizer and the presenters, and it is prohibited to copy, modify, or redistribute the total or a part of the broadcasted material without the previous permission of RIKEN.
(Jan 19, 2026)


