Computer Engineering Commons^™

An Fpga Based Implementation Of The Exact Stochastic Simulation Algorithm, Phani Bharadwaj Vanguri

Masters Theses

Mathematical and statistical modeling of biological systems is a desired goal for many years. Many biochemical models are often evaluated using a deterministic approach, which uses differential equations to describe the chemical interactions. However, such an approach is inaccurate for small species populations as it neglects the discrete representation of population values, presents the possibility of negative populations, and does not represent the stochastic nature of biochemical systems. The Stochastic Simulation Algorithm (SSA) developed by Gillespie is able to properly account for these inherent noise fluctuations. Due to the stochastic nature of the Monte Carlo simulations, large numbers of simulations …