scholarly journals A nucleic acid strand displacement system for the multiplexed detection of tuberculosis-specific mRNA using quantum dots

Nanoscale ◽  
2016 ◽  
Vol 8 (19) ◽  
pp. 10087-10095 ◽  
Author(s):  
H. D. Gliddon ◽  
P. D. Howes ◽  
M. Kaforou ◽  
M. Levin ◽  
M. M. Stevens
Keyword(s):  
Quantum Dots ◽  
Nucleic Acid ◽  
Strand Displacement ◽  
Multiplexed Detection ◽  
Mrna Detection ◽  
Dna Strand Displacement ◽  
Displacement System ◽  
Dna Strand ◽  
Specific Mrna

On the development of a novel multiplexed assay for Tuberculosis-specific mRNA detection using DNA strand displacement and quantum dots.

scholarly journals Abstractions for DNA circuit design

2011 ◽  
Vol 9 (68) ◽  
pp. 470-486 ◽  
Author(s):  
Matthew R. Lakin ◽  
Simon Youssef ◽  
Luca Cardelli ◽  
Andrew Phillips
Keyword(s):  
Reaction Kinetics ◽  
Computational Cost ◽  
Logic Gates ◽  
Strand Displacement ◽  
Levels Of Detail ◽  
Molecular Detail ◽  
Dna Strand Displacement ◽  
Displacement System ◽  
Dna Strand ◽  
High Level

DNA strand displacement techniques have been used to implement a broad range of information processing devices, from logic gates, to chemical reaction networks, to architectures for universal computation. Strand displacement techniques enable computational devices to be implemented in DNA without the need for additional components, allowing computation to be programmed solely in terms of nucleotide sequences. A major challenge in the design of strand displacement devices has been to enable rapid analysis of high-level designs while also supporting detailed simulations that include known forms of interference. Another challenge has been to design devices capable of sustaining precise reaction kinetics over long periods, without relying on complex experimental equipment to continually replenish depleted species over time. In this paper, we present a programming language for designing DNA strand displacement devices, which supports progressively increasing levels of molecular detail. The language allows device designs to be programmed using a common syntax and then analysed at varying levels of detail, with or without interference, without needing to modify the program. This allows a trade-off to be made between the level of molecular detail and the computational cost of analysis. We use the language to design a buffered architecture for DNA devices, capable of maintaining precise reaction kinetics for a potentially unbounded period. We test the effectiveness of buffered gates to support long-running computation by designing a DNA strand displacement system capable of sustained oscillations.

DNA strand displacement system running logic programs

Biosystems ◽  
2014 ◽  
Vol 115 ◽  
pp. 5-12 ◽  
Author(s):  
Alfonso Rodríguez-Patón ◽  
Iñaki Sainz de Murieta ◽  
Petr Sosík
Keyword(s):  
Logic Programs ◽  
Strand Displacement ◽  
Dna Strand Displacement ◽  
Displacement System ◽  
Dna Strand

scholarly journals Kinetics of DNA Strand Displacement Systems with Locked Nucleic Acids

2017 ◽  
Vol 121 (12) ◽  
pp. 2594-2602 ◽  
Author(s):  
Xiaoping Olson ◽  
Shohei Kotani ◽  
Bernard Yurke ◽  
Elton Graugnard ◽  
William L. Hughes
Keyword(s):  
Nucleic Acids ◽  
Strand Displacement ◽  
Dna Strand Displacement ◽  
Locked Nucleic Acids ◽  
Dna Strand ◽  
Kinetics Of

Biocomputing based on DNA strand displacement reactions

ChemPhysChem ◽  
2021 ◽  
Author(s):  
Hui Lv ◽  
Qian Li ◽  
Jiye Shi ◽  
Fei Wang ◽  
Chunhai Fan
Keyword(s):  
Strand Displacement ◽  
Dna Strand Displacement ◽  
Displacement Reactions ◽  
Dna Strand

scholarly journals Kinetics of Toehold-Mediated DNA Strand Displacement Depend on FeII4L4 Tetrahedron Concentration

Nano Letters ◽  
2021 ◽  
Vol 21 (3) ◽  
pp. 1368-1374
Author(s):  
Jinbo Zhu ◽  
Filip Bošković ◽  
Bao-Nguyen T. Nguyen ◽  
Jonathan R. Nitschke ◽  
Ulrich F. Keyser
Keyword(s):  
Strand Displacement ◽  
Dna Strand Displacement ◽  
Dna Strand ◽  
Kinetics Of

Highly sensitive multiplex detection of microRNA by competitive DNA strand displacement fluorescence assay

Talanta ◽  
2019 ◽  
Vol 200 ◽  
pp. 487-493 ◽  
Author(s):  
Raja Chinnappan ◽  
Rawa Mohammed ◽  
Ahmed Yaqinuddin ◽  
Khalid Abu-Salah ◽  
Mohammed Zourob
Keyword(s):  
Fluorescence Assay ◽  
Multiplex Detection ◽  
Strand Displacement ◽  
Highly Sensitive ◽  
Dna Strand Displacement ◽  
Dna Strand
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