212 citations · 1.2k across the 47 of their papers we have counts for
48 papers
The Polymer Physics of Kinetoplast DNA as a Polymerised Membrane
Takahiro Sakaue, Davide Michieletto
We analyze the conformational and dynamical properties of the kinetoplast DNA (kDNA), a massive sheet-like structure made from thousands of circular DNA molecules, found in the mit…
Chromatin remodeling due to transient-link-and-pass activity enhances subnuclear dynamics
Rakesh Das, Takahiro Sakaue, G. V. Shivashankar +2
Spatiotemporal coordination of chromatin and subnuclear compartments is crucial for cells. Numerous enzymes act inside nucleus\textemdash some of those transiently link and pass tw…
Mechanisms of DNA-mediated allostery
Midas Segers, Aderik Voorspoels, Takahiro Sakaue +1
Proteins often regulate their activities via allostery - or action at a distance - in which the binding of a ligand at one binding site influences the affinity for another ligand a…
Nonequilibrium diffusion of active particles bound to a semi-flexible polymer network: simulations and fractional Langevin equation
HyeongTark Han, Sungmin Joo, Takahiro Sakaue +1
In a viscoelastic environment, the diffusion of a particle becomes non-Markovian due to the memory effect. An open question is to quantitatively explain how self-propulsion particl…
First passage time statistics of non-Markovian random walker: Onsager's regression hypothesis approach
Yuta Sakamoto, Takahiro Sakaue
First passage time plays a fundamental role in dynamical characterization of stochastic processes. Crucially, our current understanding on the problem is almost entirely relies on…
Coarse-graining DNA: Symmetry, non-local elasticity and persistence length
Yair Augusto Gutierrez Fosado, Fabio Landuzzi, Takahiro Sakaue
While the behavior of double stranded DNA at mesoscopic scales is fairly well understood, less is known about its relation to the rich mechanical properties in the base-pair scale,…