5 papers
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…