In this paper we study the design of transcriptional logic based on quantitative models of cis-regulatory networks. Recent efforts in the area of synthetic biology have shown that logic gates can be implemented using the DNA transcriptional machinery of the cell. We show how to extend these previous results to the design of combinational and sequential circuits. The extension of our method to the design of sequential circuits is particularly attractive because they represent the most general class of circuits. As representative examples here we demonstrate the construction of a memory element and of a 1-bit ALU, two basic building blocks of a transcription-based biochemical CPU. 1
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