Effective design principles for leakless strand displacement systems
نویسندگان
چکیده
منابع مشابه
Leakless DNA Strand Displacement Systems
While current experimental demonstrations have been limited to small computational tasks, DNA strand displacement systems (DSD systems) [25] hold promise for sophisticated information processing within chemical or biological environments. A DSD system encodes designed reactions that are facilitated by three-way or four-way toeholdmediated strand displacement. However, such systems are capable o...
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Sets of DNA strands that satisfy combinatorial and thermodynamic properties play an important role in various approaches to biomolecular computations, nano structure design, molecular tagging, and DNA microarrays. The problem of designing such sets of DNA strands appears to be computationally hard. This thesis introduces new algorithms for design of DNA strand sets that satisfy any of several c...
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DNA strand displacement has been used to construct a variety of components, devices, and circuits. The sequences of involved nucleic acid molecules can greatly influence the kinetics and function of strand displacement reactions. To facilitate consideration of spurious reactions during the design process, one common strategy is to subdivide DNA strands into domains, continuous nucleic acid base...
متن کاملAvailability: A Metric for Nucleic Acid Strand Displacement Systems
DNA strand displacement systems have transformative potential in synthetic biology. While powerful examples have been reported in DNA nanotechnology, such systems are plagued by leakage, which limits network stability, sensitivity, and scalability. An approach to mitigate leakage in DNA nanotechnology, which is applicable to synthetic biology, is to introduce mismatches to complementary fuel se...
متن کاملVisual DSD: a design and analysis tool for DNA strand displacement systems
SUMMARY The Visual DSD (DNA Strand Displacement) tool allows rapid prototyping and analysis of computational devices implemented using DNA strand displacement, in a convenient web-based graphical interface. It is an implementation of the DSD programming language and compiler described by Lakin et al. (2011) with additional features such as support for polymers of unbounded length. It also suppo...
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ژورنال
عنوان ژورنال: Proceedings of the National Academy of Sciences
سال: 2018
ISSN: 0027-8424,1091-6490
DOI: 10.1073/pnas.1806859115