The simulation of biological systems prior to their physical implementation can save time, money, and potentially provide insights into alternate designs. This paper presents a simulation environment which allows for a visual design process …
When designing and analyzing genetic circuits, researchers are often interested in the probability of the system reaching a given state within a certain amount of time. Usually, this involves simulating the system to produce some time series data and …
Researchers are now developing synthetic genetic circuits to manipulate the biochemical processes within living cells. In order to model and predict the behavior of these circuits, the designer must account for numerous reactions among many chemical …
Electronic design automation (EDA) tools have facilitated the design of ever more complex integrated circuits each year. Synthetic biology would also benefit from the development of genetic design automation (GDA) tools. Existing GDA tools require …
Synthetic biology uses engineering principles to design circuits out of genetic materials that are inserted into bacteria to perform various tasks. While synthetic combinational Boolean logic gates have been constructed, there are many open issues in …
This paper presents a technique to estimate the stochastic cycle period (SCP), a performance metric for timed asynchronous circuits. This technique uses timed stochastic Petri nets (TSPN) which support choice and arbitrary delay distributions. The …
This paper presents a technique to estimate the stochastic cycle period (SCP), a performance metric for timed asynchronous circuits. This technique uses timed stochastic Petri nets (TSPN) which support choice and arbitrary delay distributions. The …