Title :
Adaptive multi-scaled simulation algorithm for biochemical reaction in complex systems
Author :
Turner, Jesse ; Ji, Lin ; Cox, Dennis
Abstract :
A new hybrid simulation method is introduced that adaptively combines the four most efficient simulation methods at different scales by dynamically partitioning the reactions according to both the reaction propensity and the molecular abundance. Simulation results prove it to be accurate but much more efficient than SSA. This could provide an accurate and efficient multiscale solution for biochemical reaction simulations in systems biology, since it covers more scales efficiently and can be easily updated by “plugging-in” the latest algorithm in a specified level.
Keywords :
biochemistry; biology computing; chemistry computing; reaction kinetics theory; simulation; adaptive multiscaled simulation algorithm; biochemical reaction simulations; complex systems; hybrid simulation method; molecular abundance; reaction propensity; systems biology; Adaptation models; Biological system modeling; Chemicals; Computational modeling; Mathematical model; Partitioning algorithms; Stochastic processes;
Conference_Titel :
Bioinformatics and Biomedicine Workshops (BIBMW), 2011 IEEE International Conference on
Conference_Location :
Atlanta, GA
Print_ISBN :
978-1-4577-1612-6
DOI :
10.1109/BIBMW.2011.6112505
