Continuous variables logic via coupled automata using a DNAzyme cascade with feedback

Lilienthal, Sivan; Klein, Michael L.; Orbach, Ron; Willner, Itamar; Remacle, Françoise; Levine, R. D.

doi:10.1039/c6sc03892a

Cited by 25 publications

(9 citation statements)

References 41 publications

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“…Aside from base-pairing hybridization, DNAzymes that are capable of performing catalytic activity [8, 22a] (usually cleavingt argeted DNA/RNA) also provide aset of unique tools for manipulating DNA/RNA substrates specifically and producing consequent signals. [29] Willner and co-workers [30] constructed several computing modules, which consist of al ibrary of DNAzyme subunits and fluorophore/quencher-labeled ssDNA substrates. As shown in Figure 1.…”

Section: Signals Derived From Dnazyme Activitymentioning

confidence: 99%

Recent Progress in Fluorescence Signal Design for DNA‐Based Logic Circuits

Yang

Song

et al. 2019

Chemistry A European J

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DNA‐based logic circuits, encoding algorithms in DNA and processing information, are pushing the frontiers of molecular computers forward, owing to DNA′s advantages of stability, accessibility, manipulability, and especially inherent biological significance and potential medical application. In recent years, numerous logic functions, from arithmetic to nonarithmetic, have been realized based on DNA. However, DNA can barely provide a detectable signal by itself, so that the DNA‐based circuits depend on extrinsic signal actuators. The signal strategy of carrying out a response is becoming one of the design focuses in DNA‐based logic circuit construction. Although work on sequence and structure design for DNA‐based circuits has been well reviewed, the strategy on signal production lacks comprehensive summary. In this review, we focused on the latest designs of fluorescent output for DNA‐based logic circuits. Several basic strategies are summarized and a few designs for developing multi‐output systems are provided. Finally, some current difficulties and possible opportunities were also discussed.

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Section: Signals Derived From Dnazyme Activitymentioning

confidence: 99%

Recent Progress in Fluorescence Signal Design for DNA‐Based Logic Circuits

Yang

Song

et al. 2019

Chemistry A European J

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“…Concatenating two full adders by electrically addressing (80) a single dopant atom was experimentally demonstrated by Rogge and colleagues (81). With Itamar Willner and colleagues, we studied chemical addressing (82) and were able to achieve significant complexity (83). Optical remained the fastest and most selective route; recently, we used two-dimensional spectroscopy to design (84) and build (85) decision trees and, in general, implement parallel computing (Figure 5).…”

Section: Finite State Logicmentioning

confidence: 99%

Untitled

2018

Annu. Rev. Phys. Chem.

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Invited by the editorial committee of the Annual Review of Physical Chemistry to "contribute my autobiography," I present it here, as I understand the term. It is about my parents, my mentors, my coworkers, and my friends in learning and the scientific problems that we tried to address. Courtesy of the editorial assistance of Annual Reviews, some of the science is in the figure captions and sidebars. I am by no means done: I am currently trying to fuse the quantitative rigor of physical chemistry with systems biology while also dealing with a post-Born-Oppenheimer regime in electronic dynamics and am attempting to instruct molecules to perform advanced logic.

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“…29 DNAzymes have the advantage of specic recognition and fast reaction speed which have been proven to be suitable for the execution of DNA molecular circuits, such as feedback circuits, 30,31 majority voting logic circuits, 32 and multiple cascade logic circuits. 33,34 The activity of DNAzymes is affected by many factors and can be adjusted in several ways, such as pH control 35,36 and metal ions triggers. 37,38 Generally speaking, DNAzymes show their activity only within a certain pH range.…”

Section: Introductionmentioning

confidence: 99%