Digital Signal Processing With Molecular Reactions

Abstract

This paper presents a methodology for implementing digital signal processing (DSP) operations such as filtering with molecular reactions. Molecular reactions that produce time-varying output quantities of molecules as a function of time-varying input quantities are designed according to a DSP specification. Unlike all previous schemes for molecular computation, the methodology produces designs that are dependent only on coarse rate categories for the reactions ("fast" and "slow"). Given such categories, the computation is exact and independent of the specific reaction rates. The methodology is illustrated with the design of a simple moving-average filter as well as a more complex biquad filter. Both designs are translated into DNA strand displacement reactions. The designs are validated through transient stochastic simulations of the chemical kinetics at the DNA reactions level. Although conceptual for the time being, the proposed methodology has potential applications in domains of synthetic biology such as biochemical sensing and drug delivery.

Deterministic function computation with chemical reaction networks

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Strong Turing Completeness of Continuous Chemical Reaction Networks and Compilation of Mixed Analog-Digital Programs

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Design of High Quality Chemical XOR Gates with Noise Reduction

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