title: Two-phase partition method for simulating a biological system at an extremely high speed.
abstract: To accelerate the calculation speed for simulating a biological system, we proposed a novel simulation method, the two-phase partition method, which calculated molecular processes at a higher speed than any other proposed method. This method divides a biological system, which can be described by chemical reaction equations, into two-phases: the binding and reaction phases. We demonstrated the capability of the two-phase partition method to simulate a complex biological system at an extremely high speed and clarified the accuracy of the simulation. The two-phase partition method is very useful for simulating complex interactions among proteins and DNAs.
authors.affiliation: Department of Biochemical Engineering and ScienceKyushu Institute of Technology, Kawazu, Iizuka, Fukuoka 820-8502, Japan. hkurata@bio.t.u-tokyo.ac.jp
authors.forename: H
authors.initials: H
authors.lastname: Kurata
authors.forename: K
authors.initials: K
authors.lastname: Taira
mesh_terms: D000641:Ammonia / Q000378:metabolism; D019295:Computational Biology; D003198:Computer Simulation; D004926:Escherichia coli / Q000235:genetics / Q000378:metabolism; D018869:Heat-Shock Response; D007700:Kinetics; D008433:Mathematics; D008954:Models, Biological; D014176:Protein Biosynthesis; D011506:Proteins / Q000235:genetics
chemical_list: D011506:Proteins; D000641:Ammonia