274 citations · 372 across the 7 of their papers we have counts for
8 papers
Optical dispersions through intracellular inhomogeneities
Masaki Watabe, Yasuhiro Hirano, Atsuko Iwane +2
Transport of intensity equation (TIE) exhibits a non-interferometric correlation between intensity and phase variations of intermediate fields (e.g., light and electron) in biologi…
Signaling activations through G-protein-coupled-receptor aggregations
Masaki Watabe, Hideaki Yoshimura, Satya N. V. Arjunan +2
Eukaryotic cells transmit extracellular signal information to cellular interiors through the formation of a ternary complex made up of a ligand (or agonist), G-protein, and G-prote…
Cooperativity transitions driven by higher-order oligomer formations in ligand-induced receptor dimerization
Masaki Watabe, Satya N. V. Arjunan, Wei Xiang Chew +2
While cooperativity in ligand-induced receptor dimerization has been linked with receptor-receptor couplings via minimal representations of physical observables, effects arising fr…
Surface reaction-diffusion kinetics on lattice at the microscopic scale
Wei-Xiang Chew, Kazunari Kaizu, Masaki Watabe +3
Microscopic models of reaction-diffusion processes on the cell membrane can link local spatiotemporal effects to macroscopic self-organized patterns often observed on the membrane.…
eGFRD in all dimensions
Thomas R. Sokolowski, Joris Paijmans, Laurens Bossen +7
Biochemical reactions typically occur at low copy numbers, but at once in crowded and diverse environments. Space and stochasticity therefore play an essential role in biochemical…
pSpatiocyte: A Parallel Stochastic Method for Particle Reaction-Diffusion Systems
Atsushi Miyauchi, Kazunari Iwamoto, Satya Nanda Vel Arjunan +1
Computational systems biology has provided plenty of insights into cell biology. Early on, the focus was on reaction networks between molecular species. Spatial distribution only b…
Membrane clustering and the role of rebinding in biochemical signaling
Andrew Mugler, Aimee Gotway Bailey, Koichi Takahashi +1
In many cellular signaling pathways, key components form clusters at the cell membrane. Although much work has focused on the mechanisms behind such cluster formation, the implicat…
Spatio-temporal correlations can drastically change the response of a MAPK pathway
Koichi Takahashi, Sorin Tanase-Nicola, Pieter Rein ten Wolde
Multisite covalent modification of proteins is omnipresent in eukaryotic cells. A well-known example is the mitogen-activated protein kinase (MAPK) cascade, where in each layer of…