ArticleProceedings of the National Academy of Sciences of the United States of America2018
Effective design principles for leakless strand displacement systems.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed.
- A thermodynamically favoured molecular computer.Nature · 2026Article
- DNA-Based Boolean Logic Gates for Molecular Computation and Biosensing: A Critical Review.Molecular biotechnology · 2026Review
- Visualizing and Quantifying microRNA-Induced DNA Origami Separation at the Nanoscale.Angewandte Chemie (International ed. in English) · 2026Article
- Photothermal Recycling Biosensing for Continuous, Sensitive Molecular Quantification.bioRxiv : the preprint server for biology · 2026Article
- On Degradation-Induced Leak in Heterochiral DNA Strand Displacement Cascades.ACS synthetic biology · 2026Article
- Molecular computation at equilibrium via programmable entropy.Science advances · 2026Article
- Enzyme-driven triplex structure-based DNA logic circuits.Journal of nanobiotechnology · 2025Article
- Functions and applications of enzymes in nucleic acid nanotechnology.Journal of nanobiotechnology · 2025Review
- Acoustically seeded fabrication of a DNA tesseract into a conductive wire.Nucleic acids research · 2025Article
- Interpretable molecular decision-making with DNA-based scalable and memory-efficient tree computation.Nature communications · 2025Article
- Whole-transcriptome sequencing in neural and non-neural tissues of a mouse model identifies miR-34a as a key regulator in SMA pathogenesis.Molecular therapy. Nucleic acids · 2025Article
- Abstraction-based segmental simulation of reaction networks using adaptive memoization.BMC bioinformatics · 2024Article
- Y-switch: a spring-loaded synthetic gene switch for robust DNA/RNA signal amplification and detection.Nucleic acids research · 2024Article
- An efficient DNAzyme-locked leakless enzyme-free amplification system for alpha-foetoprotein detection in liver cancer and breast cancer.Mikrochimica acta · 2024Article
- DNA as a universal chemical substrate for computing and data storage.Nature reviews. Chemistry · 2024Review
- Article
- Programmable Biomolecule-Mediated Processors.Journal of the American Chemical Society · 2023Review
- Twinkle-Catalyzed Toehold-Mediated DNA Strand Displacement Reaction.Journal of the American Chemical Society · 2023Article
- Parallel molecular computation on digital data stored in DNA.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Leveraging Steric Moieties for Kinetic Control of DNA Strand Displacement Reactions.Journal of the American Chemical Society · 2023Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Artificially designed molecular systems with programmable behaviors have become a valuable tool in chemistry, biology, material science, and medicine. Although information processing in biological regulatory pathways is remarkably robust to error, it remains a challenge to design molecular systems that are similarly robust. With functionality determined entirely by secondary structure of DNA, strand displacement has emerged as a uniquely versatile building block for cell-free biochemical networks. Here, we experimentally investigate a design principle to reduce undesired triggering in the absence of input (leak), a side reaction that critically reduces sensitivity and disrupts the behavior of strand displacement cascades. Inspired by error correction methods exploiting redundancy in electrical engineering, we ensure a higher-energy penalty to leak via logical redundancy. Our design strategy is, in principle, capable of reducing leak to arbitrarily low levels, and we experimentally test two levels of leak reduction for a core "translator" component that converts a signal of one sequence into that of another. We show that the leak was not measurable in the high-redundancy scheme, even for concentrations that are up to 100 times larger than typical. Beyond a single translator, we constructed a fast and low-leak translator cascade of nine strand displacement steps and a logic
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