Simulation Approach for Timing Analysis of Genetic Logic Circuits

Constructing genetic logic circuits is an application of synthetic biology in which parts of the DNA of a living cell are engineered to perform a dedicated Boolean function triggered by an appropriate concentration of certain proteins or by different genetic components. These logic circuits work in a manner similar to electronic logic circuits, but they are much more stochastic and hence much harder to characterize. In this article, we introduce an approach to analyze the threshold value and timing of genetic logic circuits. We show how this approach can be used to analyze the timing behavior of single and cascaded genetic logic circuits. We further analyze the timing sensitivity of circuits by varying the degradation rates and concentrations. Our approach can be used not only to characterize the timing behavior but also to analyze the timing constraints of cascaded genetic logic circuits, a capability that we believe will be important for design automation in synthetic biology

Channel estimation from known preamble sequences

The least sum of squared estimation (LSSE)channel estimation algorithm is applied for determining a channel impulse response from known preamble sequences. Optimum training sequences are designed for different channel responses and training sequence lengths. The effect of channel estimation errors on the performance of some data detectors is also investigated. As a special case some non-maximal length sequences and ternary sequences (with alphabet 0, ±1) are also considered for performance evaluation