3 papers
physics.chem-ph2026
IEPDYN: Integral-equation formalism of population dynamics
Kento Kasahara, Ryo Okabe, Chia-en A. Chang +2
We propose the integral-equation formalism of population dynamics (IEPDYN) to describe the population dynamics of distinct configurational states. According to classical reaction d…
cond-mat.soft2025
Characterizing the embedded states of a fluorescent probe within a lipid bilayer using molecular dynamics simulations
Ryo Okabe, Natsuumi Ito, Yuya Matsubara +4
The physicochemical properties of lipid bilayers (membranes) are closely associated with various cellular functions and are often evaluated using absorption and fluorescence spectr…
cond-mat.soft2024
A methodology of quantifying membrane permeability based on returning probability theory and molecular dynamics simulation
Yuya Matsubara, Ryo Okabe, Ren Masayama +4
We propose a theoretical approach to estimate the permeability coefficient of substrates (permeants) for crossing membranes from donor (D) phase to acceptor (A) phase by means of m…