Design and Analysis of Compact DNA Strand Displacement Circuits for Analog Computation Using Autocatalytic Amplifiers
| Autor: | Reem Mokhtar, Sudhanshu Garg, Tianqi Song, Hieu Bui, John H. Reif |
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| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Logarithm Computation Biomedical Engineering 02 engineering and technology Topology Biochemistry Genetics and Molecular Biology (miscellaneous) Catalysis law.invention 03 medical and health sciences Square root law DNA computing Electronic circuit Physics Slide rule Amplifier Nucleic Acid Hybridization General Medicine DNA Models Theoretical 021001 nanoscience & nanotechnology Exponential function 030104 developmental biology 0210 nano-technology Algorithms |
| Zdroj: | ACS synthetic biology. 7(1) |
| ISSN: | 2161-5063 |
| Popis: | A main goal in DNA computing is to build DNA circuits to compute designated functions using a minimal number of DNA strands. Here, we propose a novel architecture to build compact DNA strand displacement circuits to compute a broad scope of functions in an analog fashion. A circuit by this architecture is composed of three autocatalytic amplifiers, and the amplifiers interact to perform computation. We show DNA circuits to compute functions sqrt(x), ln(x) and exp(x) for x in tunable ranges with simulation results. A key innovation in our architecture, inspired by Napier's use of logarithm transforms to compute square roots on a slide rule, is to make use of autocatalytic amplifiers to do logarithmic and exponential transforms in concentration and time. In particular, we convert from the input that is encoded by the initial concentration of the input DNA strand, to time, and then back again to the output encoded by the concentration of the output DNA strand at equilibrium. This combined use of strand-concentration and time encoding of computational values may have impact on other forms of molecular computation. |
| Databáze: | OpenAIRE |
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