caa a22 4500 445842652 CHVBK 20180317145349.0 cr unu---uuuuu 170323e20110301xx s 000 0 eng 10.1007/s11047-010-9195-z doi (NATIONALLICENCE)springer-10.1007/s11047-010-9195-z A review of the nondeterministic waiting time algorithm [Elektronische Daten] [John Jack, Andrei Păun, Alfonso Rodríguez-Patón] We provide the description for the nondeterministic waiting time (NWT) algorithm, a biochemical modeling approach based on the membrane systems paradigm of computation. The technique provides a unique (different to Gillespie's algorithm or ODE modeling) perspective on the biochemical evolution of the cell. That is, depending on the reactions and molecular multiplicities of a given model, our simulator is capable of producing results comparable to the alternative techniques—continuous and deterministic or discrete and stochastic. Some results for sample models are given, illustrating the differences between the NWT algorithm, the Gillespie algorithm, and the solutions to systems of ordinary differential equations. We have previously used this simulation technique to address issues surrounding Fas-induced apoptosis in cancerous cells and so-called latent HIV-infected cells. Springer Science+Business Media B.V., 2010 Systems biology nationallicence Biochemical modeling nationallicence Stochastic nationallicence Discrete nationallicence Gillespie algorithm nationallicence Lotka-Volterra nationallicence Circadian rhythm nationallicence Jack John Department of Computer Science, IfM Louisiana Tech University, P.O. Box 10348, 71272, Ruston, LA, USA aut Păun Andrei Department of Computer Science, IfM Louisiana Tech University, P.O. Box 10348, 71272, Ruston, LA, USA aut Rodríguez-Patón Alfonso Facultad de Informática, Departamento de Inteligencia Artificial, Universidad Politécnica de Madrid, Campus de Montegancedo S/N, 28660, Boadilla del Monte, Madrid, Spain aut Natural Computing Springer Netherlands 10/1(2011-03-01), 139-149 1567-7818 10:1<139 2011 10 11047 https://doi.org/10.1007/s11047-010-9195-z text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11047-010-9195-z text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Jack John Department of Computer Science, IfM Louisiana Tech University, P.O. Box 10348, 71272, Ruston, LA, USA aut NATIONALLICENCE 700 1- Păun Andrei Department of Computer Science, IfM Louisiana Tech University, P.O. Box 10348, 71272, Ruston, LA, USA aut NATIONALLICENCE 700 1- Rodríguez-Patón Alfonso Facultad de Informática, Departamento de Inteligencia Artificial, Universidad Politécnica de Madrid, Campus de Montegancedo S/N, 28660, Boadilla del Monte, Madrid, Spain aut NATIONALLICENCE 773 0- Natural Computing Springer Netherlands 10/1(2011-03-01), 139-149 1567-7818 10:1<139 2011 10 11047 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer