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DNA Strand-Displacement Temporal Logic Circuits

Lapteva, Anna P. and Sarraf, Namita and Qian, Lulu (2022) DNA Strand-Displacement Temporal Logic Circuits. Journal of the American Chemical Society, 144 (27). pp. 12443-12449. ISSN 0002-7863. PMCID PMC9284558. doi:10.1021/jacs.2c04325. https://resolver.caltech.edu/CaltechAUTHORS:20220705-672155000

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Abstract

Molecular circuits capable of processing temporal information are essential for complex decision making in response to both the presence and history of a molecular environment. A particular type of temporal information that has been recognized to be important is the relative timing of signals. Here we demonstrate the strategy of temporal memory combined with logic computation in DNA strand-displacement circuits capable of making decisions based on specific combinations of inputs as well as their relative timing. The circuit encodes the timing information on inputs in a set of memory strands, which allows for the construction of logic gates that act on current and historical signals. We show that mismatches can be employed to reduce the complexity of circuit design and that shortening specific toeholds can be useful for improving the robustness of circuit behavior. We also show that a detailed model can provide critical insights for guiding certain aspects of experimental investigations that an abstract model cannot. We envision that the design principles explored in this study can be generalized to more complex temporal logic circuits and incorporated into other types of circuit architectures, including DNA-based neural networks, enabling the implementation of timing-dependent learning rules and opening up new opportunities for embedding intelligent behaviors into artificial molecular machines.


Item Type:Article
Related URLs:
URLURL TypeDescription
https://doi.org/10.1021/jacs.2c04325DOIArticle
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9284558/PubMed CentralArticle
ORCID:
AuthorORCID
Qian, Lulu0000-0003-4115-2409
Additional Information:© 2022 The Authors. Published by American Chemical Society. Attribution 4.0 International (CC BY 4.0). Received: April 22, 2022; Published: July 2, 2022. A.P.L. and N.S. were supported by Caltech internal funds for BE/CS 196, a course on design and construction of programmable molecular systems. N.S. was also supported by an NIH/NRSA training grant (T32 GM07616). L.Q. was supported by an NSF award (1813550). Author Contributions. A.P.L. and N.S. contributed equally. The authors declare no competing financial interest.
Funders:
Funding AgencyGrant Number
CaltechUNSPECIFIED
NIH Predoctoral FellowshipT32 GM07616
NSFCCF-1813550
Issue or Number:27
PubMed Central ID:PMC9284558
DOI:10.1021/jacs.2c04325
Record Number:CaltechAUTHORS:20220705-672155000
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20220705-672155000
Official Citation:DNA Strand-Displacement Temporal Logic Circuits. Anna P. Lapteva, Namita Sarraf, and Lulu Qian. Journal of the American Chemical Society 2022 144 (27), 12443-12449; DOI: 10.1021/jacs.2c04325
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:115317
Collection:CaltechAUTHORS
Deposited By: George Porter
Deposited On:08 Jul 2022 21:49
Last Modified:27 Jul 2022 17:27

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