The Design and Implementation for Dynamic Simulation of Systems Biology Software

• Main Authors: Yu-min Chen, 陳昱閔
• Other Authors: Maw-Shang Chang
• Format: Others
• Language: en_US
• Published: 2007
• Online Access: http://ndltd.ncl.edu.tw/handle/29344821093533428251

碩士 === 國立中正大學 === 資訊工程所 === 95 === Modeling and simulation is becoming a standard approach to understand complex biochemical processes. One can gain insight into the system by sim- ulation, that is, attempt to simulate an abstract model of a particular system by a computer program. Mathematical modeling and dynamic simulation of genetic networks, metabolic networks and signal transduction cascades is a central theme in systems biology and is attracting increasing attention in the post-genomic era. Therefore, there is a big need for software tools that allow access to diverse simulation and modeling methods as well as support for the usage of these methods. In this thesis, we study the parameter es- timation problem in Systems Biology and assist Professor F.S. Wang to develop Systems Biology software for those users who do not have an ad- vanced mathematical grounding. In the software, we integrate the existing ordinary differential equations solver(for dynamic simulation) and parameter estimation solver(for modeling) with some user friendly features. These fea- tures including friendly graphical user interface(GUI), various mathematical forms of biochemical map as input, graphical output of computation result, efficient multi-threaded programming and Object-Oriented Programming.