epicassemblyjp.bsky.social
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EPIC Assembly is a newly launched project exploring how non-equilibrium and evolutionary dynamics drive the emergence and increasing complexity of biological functions and structures.
Learn more: sites.google.com/g.ecc.u-toky...
A new paper by the group B02 is out in PRX Life. For a cell population using spatially distributed molecules as a shared memory, they derived an optimal pairing of sensing and generation of the molecule for achieving optimal collective learning via the RL theory.
www.iis.u-tokyo.ac.jp/en/news/4889/
Artificial intelligence theory could be the key to how collective cell intelligence works
Researchers from #UTokyo_IIS have found that single cells in collective chemotaxis act like agents in distributed reinforcement learning, utilizing the environment as an “external memory” and exhibiti...
www.iis.u-tokyo.ac.jp
October 17, 2025 at 6:37 AM
A new letter in PRR from the Group B02. Using resource-constrained optimal control theory, they identified transitions in the complexity of biological information processing induced by resource availability, suggesting punctuated evolution of information processing.
journals.aps.org/prresearch/a...
Resource limitations induce phase transitions in biological information processing
An optimal estimation and control framework is proposed that explicitly accounts for biological resource limitations. Application of this framework to biological information processing shows that reso...
journals.aps.org
October 15, 2025 at 6:04 AM
A new paper from Group B2 is now out in PRE. They proposed a method for coarse-graining reaction systems into graphs by focusing on their conserved quantities, and discuss the associated thermodynamic quantities and their interrelations.
journals.aps.org/pre/abstract...
Transitions and thermodynamics on species graphs of chemical reaction networks
Chemical reaction network (CRN) theory is widely utilized to model and analyze a wide range of biochemical phenomena. Structural transformations and reductions serve as essential tools to better under...
journals.aps.org
October 9, 2025 at 3:29 AM
A new paper from the A02 group is now out in Journal of Cell Science. They established a quantitative method to measure cyclin–CDK complex dissociation, providing new insights into the quantitative understanding of cell cycle regulation. journals.biologists.com/jcs/article-...
Quantification of cyclin–CDK dissociation constants using FCCS with green and near-infrared fluorescent proteins
Summary: Phycocyanobilin-bound miRFP670 is bright and photostable, enabling quantitative fluorescent cross-correlation spectroscopy analysis of cyclin–CDK interactions in living fission yeast and mamm...
journals.biologists.com
October 8, 2025 at 11:31 AM
A theoretical study by Group B01 proposing the model of proliferating active matter system is out in PRR. This model shows a novel principle of flocking transition originated from proliferation, where ordered motion arises without explicit alignment interactions. journals.aps.org/prresearch/a...
Spatially structured flocking in a proliferating population of self-propelled organisms without explicit alignment interactions
While it is well established that self-propelled particles with alignment interactions can exhibit orientational order, the impact of self-replication and annihilation, which are key characteristics in cellular systems, on spatiotemporal order remains poorly understood. To explore the interplay between self-propulsion and self-replication, we introduce the active Brownian bug model, in which self-propelled agents undergo stochastic, density-dependent replication and constant-rate death. Despite the absence of alignment interactions, the system exhibits flocking behavior characterized by high orientational order, while maintaining ordered hexagonal arrays. This emergent order arises from stochastic birth and death processes, offering a mechanism for flocking in proliferating cellular populations.
journals.aps.org
October 8, 2025 at 11:28 AM
A theoretical study by Group B01 proposing the realization of non-reciprocal interactions between spins in solid state systems via light irradiation has been published in Nature Communications.
www.nature.com/articles/s41...
Photoinduced non-reciprocal magnetism - Nature Communications
In open nonequilibrium systems, interactions that break the action-reaction symmetry are ubiquitous in nature. While such nonreciprocal interactions have been implemented for quantum systems, they typically require fine microscopic control of dissipation. Here, Hanai, Ootsuki and Tazai propose a dissipation engineering scheme that induces nonreciprocal interactions in solid state materials, giving rise to a persistent many-body chase-and-runaway dynamics of magnetism in layered ferromagnets.
www.nature.com
October 8, 2025 at 10:14 AM
A new paper from the B02 group is now out in PRX Life. They established an optimal control theory specifically designed for biological networks & assemblies, elucidating the autonomous optimal regulatory law required to achieve a given function.
www.iis.u-tokyo.ac.jp/en/news/4874/
Switching it up: the secret survival strategy to life as revealed by mathematics
Researchers from #UTokyo_IIS have formulated a mathematical theory for dynamical networks made of biological agents, such as humans
www.iis.u-tokyo.ac.jp
October 8, 2025 at 10:12 AM
EPIC Assembly is a newly launched project exploring how non-equilibrium and evolutionary dynamics drive the emergence and increasing complexity of biological functions and structures.
Learn more: sites.google.com/g.ecc.u-toky...
October 8, 2025 at 10:11 AM