This paper introduces a scalable FPGA implementation of a stochastic simulation algorithm
(SSA) called the Next Reaction Method. There are some hardware approaches of SSAs that …

We present SysPy (System Python) a tool which exploits the strengths of the popular Python
scripting language to boost design productivity of embedded System on Chips for FPGAs …

Simulation of biomolecular networks with thousands of reactions is becoming essential for
systems biology. We are presenting the design of a scalable System on Chip parallel …

Bioinformatics is one of the most frequently applied fields in FPGAs. Some applications in
this field can be efficiently implemented by systolic arrays, which are intrinsically suited to …

Stochastic simulation of large-scale biochemical reaction networks, with thousands of
reactions, is important for systems biology and medicine since it will enable the insilico …

Stochastic simulation of large-scale biochemical reaction networks, with thousands of
reactions, is important for systems biology and medicine since it will enable the insilico …

This paper studies several designs of network-based FPGA implementation of a stochastic
simulation algorithm called the next reaction method, known for its large number of …

Computational studies of biological systems have gained widespread attention as a
promising alternative to regular experimentation. Within this domain, stochastic simulation …

A soft IP core, expressed in parametric VHDL, has been developed and used to synthesize
different multiprocessor Systems on Chip (SoCs) for the stochastic simulation of large-size …

Computational models of gene regulatory networks (GRNs) well describe the behavior of
interactions among molecular species over time. For larger networks, the problem of state …