The DOI matches its Crossref record; 21 of the 22 references it cites were found in a registry or an index.
Fast and compact DNA logic circuits based on single-stranded gates using strand-displacing polymerase
Abstract
DNA is a reliable biomolecule with which to build molecular computation systems. In particular, DNA logic circuits (diffusion-based) have shown good performance regarding scalability and correctness of computation. However, previous architectures of DNA logic circuits have two limitations. First, the speed of computation is slow, often requiring hours to compute a simple function. Second, the circuits are of high complexity regarding the number of DNA strands. Here, we introduce an architecture of DNA logic circuits based on single-stranded logic gates using strand-displacing DNA polymerase. The logic gates consist of only single DNA strands, which largely reduces leakage reactions and signal restoration steps such that the circuits are improved in regard to both speed of computation and the number of DNA strands needed. Large-scale logic circuits can be constructed from the gates by simple cascading strategies. In particular, we have demonstrated a fast and compact logic circuit that computes the square-root function of four-bit input numbers.
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“Moreover, the dynamic nature of these assemblies can be exploited to perform data operations,13,27 which allows DNA data storage to integrate directly into the field of DNA computation.”
From Emerging Approaches to DNA Data Storage: Challenges and Prospects (2022) · cites this paper as [27]
Citations
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Cited by
Sorted by citations
Emerging Approaches to DNA Data Storage: Challenges and Prospects
Doricchi, A., Platnich, C. M., Gimpel, A., Horn, F., Earle, M., Lanzavecchia, G., Cortajarena, A. L., Liz-Marzán, L. M., Liu, N., Heckel, R., et al. (2022) · ACS Nano · doi:10.1021/acsnano.2c06748 · Cited by 235
DNA-based programmable gate arrays for general-purpose DNA computing
Lv, H., Xie, N., Li, M., Dong, M., Sun, C., Zhang, Q., Zhao, L., Li, J., Zuo, X., Chen, H., et al. (2023) · Nature · doi:10.1038/s41586-023-06484-9 · Cited by 227
Implementing digital computing with DNA-based switching circuits
Wang, F., Lv, H., Li, Q., Li, J., Zhang, X., Shi, J., Wang, L., & Fan, C. (2020) · Nature Communications · doi:10.1038/s41467-019-13980-y · Cited by 205
Qing, M., Chen, S. L., Sun, Z., Fan, Y., Luo, H. Q., & Li, N. B. (2021) · Analytical Chemistry · doi:10.1021/acs.analchem.1c00805 · Cited by 182
Fan, D., Wang, J., Wang, E., & Dong, S. (2020) · Advanced Science · doi:10.1002/advs.202001766 · Cited by 142
Metadata
- Authors
- Song, T., Eshra, A., Shah, S., Bui, H., Fu, D., Yang, M., Mokhtar, R., & Reif, J.
- Affiliations
- Duke University (US)
- Menoufia University (EG)
- National Academies of Sciences, Engineering, and Medicine (US)
- Corresponding author
- Reif, John
- Venue
- Nature Nanotechnology
- Published
- 2019-09-23
- Volume
- 14
- Issue
- 11
- Pages
- 1075-1081
- ISSN
- 1748-3387 (ISSN-L)
- 1748-3395
- OpenAlex
- W2976321815
- Cited by
- 240
- References
- 22
- Citations by year
- 2026: 18 · 2025: 37 · 2024: 44 · 2023: 54 · 2022: 34 · 2021: 31 · 2020: 19 · 2019: 2
- FWCI
- 7.11
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Nature Nanotechnology (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Science Foundation (CCF-1320360, CCF-1217457, CCF-1617791, CCF-1813805)
- Topics
- Physical Sciences › Mathematics › Theoretical Computer Science › DNA and Biological Computing
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Advanced biosensing and bioanalysis techniques
- Physical Sciences › Engineering › Biomedical Engineering › Nanopore and Nanochannel Transport Studies
- Keywords
- DNA logic circuits, molecular computing, computational speed, signal reconstruction, square root computation
- MeSH terms
- Algorithms, DNA-Directed DNA Polymerase, DNA, Single-Stranded, Nucleic Acid Conformation, Computers, Molecular
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