DNAr-Analog: A Library With a Multiplexer to Easily Design, Program, and Simulate Dsd Analog Circuits

Programmable molecular devices are an opportunity to develop applications in biological systems, a universe still hard to access by other conventional technologies. The DNA strand displacement (DSD) mechanism offers a way to design circuits by manipulating DNA fragments. Recent works in this area highlight analog gate/unit design. Here we propose the DNAr-analog library, a set of analog gates/units concentrated on a single platform. We aim to implement large DNA circuits in a more flexible, modular, extensible, and productive way. In addition, we also propose an analog multiplexer unit and present the simulation of two circuit examples in DNAr. They feature dozens of chemical reactions converted quickly by the simulator into hundreds of DSD reactions. The advantage is that it does not need to be manually specified. We hope this facilitates the initial design of complex DNA circuits and systems.