Accession Number : ADA608565


Title :   Biomolecular Network Simulator: Software for Stochastic Simulation of Cellular Biological Processes


Descriptive Note : Conference paper


Corporate Author : ARMY MEDICAL RESEARCH AND MATERIEL COMMAND FORT DETRICK MD


Personal Author(s) : Chushak, Yaroslav ; Foy, Brent ; Frazier, John


Full Text : http://www.dtic.mil/dtic/tr/fulltext/u2/a608565.pdf


Report Date : Mar 2007


Pagination or Media Count : 7


Abstract : We developed a software package called Biomolecular Network Simulator (BNS) to model and simulate complex biomolecular reaction networks. The software uses the Gillespie stochastic simulation algorithm for generating Monte Carlo trajectories that describe the evolution of a system of biochemical reactions. This software uses a combination of MATLAB and C-coded functions and is parallelized with the MatlabMPI library to run on multiprocessor architectures. Simulations on HPC can be run either in the interactive or in the batch mode. The graphical user interface of BNS allows users to easily set parameters for the model and simulations. Furthermore, BNS contains a comprehensive set of tools for post-simulation analysis of the results.


Descriptors :   *BIOMOLECULES , *SIMULATORS , *STOCHASTIC PROCESSES , BATCH PROCESSING , BIOCHEMISTRY , GRAPHICAL USER INTERFACE , MONTE CARLO METHOD , MULTIPROCESSORS , NETWORKS , SIMULATION , TRAJECTORIES


Subject Categories : Biochemistry
      Statistics and Probability
      Test Facilities, Equipment and Methods


Distribution Statement : APPROVED FOR PUBLIC RELEASE