Tyramine Hydrochloride Based Label‐Free System for Operating Various DNA Logic Gates and a DNA Caliper for Base Number Measurements

Fan, Daoqing; Zhu, Xiaoqing; Dong, Shaojun; Wang, Erkang

doi:10.1002/cphc.201601291

Cited by 12 publications

(9 citation statements)

References 43 publications

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“…DNA logic gates have been recently used for detecting the risky patterns of diseases biomarkers [8][9][10][11][12][13][14][15][16][17][18][19][20][21]. In these gates, binary calculations are performed by specific relations between input biological and chemical molecules.…”

Section: Introductionmentioning

confidence: 99%

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Multi‐threshold and multi‐input DNA logic design style for profiling the microRNA biomarkers of real cancers

Sanjabi

Jahanian

2019

IET nanobiotechnol.

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Early detection of cancer is very critical because it can reduce the treatment risk and cost. MicroRNAs (miRNAs) have been introduced in recent years as an efficient class of biomarkers for cancer early detection. Now, real-time polymerase chain reaction has been used to profile the miRNA expression, which is costly, time consuming and low accuracy. Most recently, DNA logic gates are used to detect the miRNA expression level that is more accurate and faster than previous methods. The DNA-based logic gates face with serious challenges such as the large complexity and low scalability. In this study, the authors proposed a methodology to design multi-threshold and multi-input DNA-based logic gates in response to specific miRNA inputs in live mammalian cells. The proposed design style can simultaneously recognise multiple miRNAs with different rising and falling thresholds. The design style has been evaluated on the lung cancer biomarkers and the experimental results show the efficiency of the proposed method in terms of accuracy, efficiency and speed.

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Section: Introductionmentioning

confidence: 99%

“…Considerable contributions have been addressed to detect the specific pattern of miRNAs using DNA logic gates [8–21]. However, they face serious limitations in terms of complexity and scalability and flexibility.…”

Section: Introductionmentioning

confidence: 99%

Multi‐threshold and multi‐input DNA logic design style for profiling the microRNA biomarkers of real cancers

Sanjabi

Jahanian

2019

IET nanobiotechnol.

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“…[60] Application of AFM for reading output signals generated by biomolecular logic systemsa llows extremely high sensitivity,u pt od etection of singlem olecules, because the detection processc an be localizedo navery small surface area. [206][207][208] Although the present review article is concentrated specifically on the read-out methods for the output signals generated by the enzyme logic systems, other biomolecular computing assemblies, particularly including DNA-based logic systems, [22,23,29,[209][210][211][212] can be combined with various detection methodsd iscussed in the article. Particularly,c atalytic reactions activated by DNAzymesi nt he presence of various combinations of inputs can be analyzed by the methods developedf or the analysis of the biocatalytic logic systems based on the enzymer eactions.…”

Section: Discussionmentioning

confidence: 99%

Enzyme‐Based Logic Gates and Networks with Output Signals Analyzed by Various Methods

Katz

2017

ChemPhysChem

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The paper overviews various methods that are used for the analysis of output signals generated by enzyme‐based logic systems. The considered methods include optical techniques (optical absorbance, fluorescence spectroscopy, surface plasmon resonance), electrochemical techniques (cyclic voltammetry, potentiometry, impedance spectroscopy, conductivity measurements, use of field effect transistor devices, pH measurements), and various mechanoelectronic methods (using atomic force microscope, quartz crystal microbalance). Although each of the methods is well known for various bioanalytical applications, their use in combination with the biomolecular logic systems is rather new and sometimes not trivial. Many of the discussed methods have been combined with the use of signal‐responsive materials to transduce and amplify biomolecular signals generated by the logic operations. Interfacing of biocomputing logic systems with electronics and “smart” signal‐responsive materials allows logic operations be extended to actuation functions; for example, stimulating molecular release and switchable features of bioelectronic devices, such as biofuel cells. The purpose of this review article is to emphasize the broad variability of the bioanalytical systems applied for signal transduction in biocomputing processes. All bioanalytical systems discussed in the article are exemplified with specific logic gates and multi‐gate networks realized with enzyme‐based biocatalytic cascades.

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“…By integrating CuNPs and SYBR Green I (SG), Dong's group succeeded in realizing some advanced logic circuits under fully label‐free condition for the first time, including a series of Boolean logic gates, 4‐to‐2 EC, 1‐to‐2 DC and 1‐to‐2 DEMUX. As shown in Figure , CuNPs could be encapsulated by polyT ss‐DNA and produce strong fluorescence, while SG is a commercial fluorescence dye that prefers binding ds‐DNA to ss‐DNA.…”

Section: Designs For Constructing Multi‐output Signalsmentioning

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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Tyramine Hydrochloride Based Label‐Free System for Operating Various DNA Logic Gates and a DNA Caliper for Base Number Measurements

Cited by 12 publications

References 43 publications

Multi‐threshold and multi‐input DNA logic design style for profiling the microRNA biomarkers of real cancers

Multi‐threshold and multi‐input DNA logic design style for profiling the microRNA biomarkers of real cancers

Enzyme‐Based Logic Gates and Networks with Output Signals Analyzed by Various Methods

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

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