Add to ORKGModeling and simulation of a cellular system on computers are now becoming an essential process in biological researches. However, modern PCs can't provide enough performance to simulate large-scale biochemical networks. ReCSiP is the alternative FPGA-based solution for biochemical simulations. In this paper, the novel method of biochemical simulation with multiple reaction models on an FPGA is proposed. The method generates optimal circuit and its optimal schedule for each simulation models written in SBML, the standard markup language in systems biology. ReCSiP has a Xilinx's XC2VP70 and achieved over 20-fold speedup compared to Intel’s PentiumIII 1.13GHz.19th IEEE International Parallel and Distributed Processing Symposium (IPDPS'05), Ap...
Understanding biological evolution prompts for a detailed understanding of the realized phenotype. B...
4siReaction systems are a computational model inspired by the bio-chemical reactions that happen ins...
Motivation: Mathematical modelling is central to systems and synthetic biology. Using simulations to...
Modeling and simulation of a cellular system on com-puters are now becoming an essential process in ...
This paper introduces a scalable FPGA implementation of a stochastic simulation algorithm (SSA) call...
Stochastic simulation of biochemical reaction networks are widely focused by life scientists to repr...
In order to simulate large scale biological models with a reconfigurable FPGA-based biochemical simu...
Simulation of chemical systems allows bio-chemists to under-stand how the interactions of individual...
International audienceBiological functions emerge from a multitude of chemical species woven into in...
A reaction system is a modeling framework for investigating the functioning of the living cell, focu...
Stochastic simulation of large-scale biochemical reaction networks, with thousands of reactions, is ...
For FPGA-based scientific simulation systems, hardware design technique that can reduce required amo...
This thesis explores the use of reconfigurable hardware in modeling chemical species reacting in a s...
This paper discusses design methodology of high-throughput arithmetic pipeline modules for an FPGA-b...
Abstract—Biological pathways typically consist of dozens of reacting chemical species and hundreds o...
Understanding biological evolution prompts for a detailed understanding of the realized phenotype. B...
4siReaction systems are a computational model inspired by the bio-chemical reactions that happen ins...
Motivation: Mathematical modelling is central to systems and synthetic biology. Using simulations to...
Modeling and simulation of a cellular system on com-puters are now becoming an essential process in ...
This paper introduces a scalable FPGA implementation of a stochastic simulation algorithm (SSA) call...
Stochastic simulation of biochemical reaction networks are widely focused by life scientists to repr...
In order to simulate large scale biological models with a reconfigurable FPGA-based biochemical simu...
Simulation of chemical systems allows bio-chemists to under-stand how the interactions of individual...
International audienceBiological functions emerge from a multitude of chemical species woven into in...
A reaction system is a modeling framework for investigating the functioning of the living cell, focu...
Stochastic simulation of large-scale biochemical reaction networks, with thousands of reactions, is ...
For FPGA-based scientific simulation systems, hardware design technique that can reduce required amo...
This thesis explores the use of reconfigurable hardware in modeling chemical species reacting in a s...
This paper discusses design methodology of high-throughput arithmetic pipeline modules for an FPGA-b...
Abstract—Biological pathways typically consist of dozens of reacting chemical species and hundreds o...
Understanding biological evolution prompts for a detailed understanding of the realized phenotype. B...
4siReaction systems are a computational model inspired by the bio-chemical reactions that happen ins...
Motivation: Mathematical modelling is central to systems and synthetic biology. Using simulations to...