DNA‐Based Chemical Reaction Networks

Li, Fan; Xiao, Mingshu; Pei, Hao

doi:10.1002/cbic.201800721

Cited by 10 publications

(4 citation statements)

References 126 publications

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“…Molecular programming is an emerging discipline that involves the design of artificial biomolecular circuits performing informationprocessing tasks. It uses the predictable Watson and Crick base pairing of synthetic DNA oligonucleotides to enable the rational design of molecular circuits (34,35). We use here a versatile molecular programming language named PEN-DNA toolbox (Polymerase Exonuclease Nickase-Dynamic Network Assembly) (36,37).…”

Section: Molecular Program Designed For Microrna Detectionmentioning

confidence: 99%

Isothermal digital detection of microRNAs using background-free molecular circuit

et al. 2020

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MicroRNAs, a class of transcripts involved in the regulation of gene expression, are emerging as promising disease-specific biomarkers accessible from tissues or bodily fluids. However, their accurate quantification from biological samples remains challenging. We report a sensitive and quantitative microRNA detection method using an isothermal amplification chemistry adapted to a droplet digital readout. Building on molecular programming concepts, we design a DNA circuit that converts, thresholds, amplifies, and reports the presence of a specific microRNA, down to the femtomolar concentration. Using a leak absorption mechanism, we were able to suppress nonspecific amplification, classically encountered in other exponential amplification reactions. As a result, we demonstrate that this isothermal amplification scheme is adapted to digital counting of microRNAs: By partitioning the reaction mixture into water-in-oil droplets, resulting in single microRNA encapsulation and amplification, the method provides absolute target quantification. The modularity of our approach enables to repurpose the assay for various microRNA sequences.

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Section: Molecular Program Designed For Microrna Detectionmentioning

confidence: 99%

Isothermal digital detection of microRNAs using background-free molecular circuit

et al. 2020

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“…Over the past three decades, dynamic DNA nanotechnology has attracted extensive interest due to its great potential in nanomachinery, smart drug delivery, and biocomputing . Various chemical and physical stimuli have been introduced to trigger a dynamic DNA system, including protons, heat, light, enzymes, metal ions, and redox agents .…”

Section: Figurementioning

confidence: 99%

Base‐Sequence‐Independent Efficient Redox Switching of Self‐Assembled DNA Nanocages

et al. 2019

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Stimuli responsivity has been extensively pursued in dynamic DNA nanotechnology, due to its incredible application potentials. Among diverse dynamic systems, redox‐responsive DNA assembly holds great promise for broad applications, especially considering that redox processes widely exist in various physiological environments. However, only a few studies have been reported on redox‐sensitive dynamic DNA assembly. Albeit ingenious, most of these studies are either dependent on the DNA sequence or involve chemical modification. Herein, a facile and universal mechanism to realize redox‐responsive self‐assembly of DNA nanocages (tetrahedron and cube) driven by the interconversion between cystamine and cysteamine toward dynamic DNA nanotechnology is reported.

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“…Genetic regulatory circuits have recently emerged as effective means for remodeling intercellular interactions by genetically engineering cell-surface receptors. − Although such a genetic membrane engineering-based strategy enables programmable control over contact-induced cell–cell signaling, its applications are restricted by inefficient gene transfer, laborious protocols, and safety issues . In contrast, synthetic DNA circuits have been widely used for biological computing due to their high programmability, which are important chemical tools for information processing on the molecular level. In addition, DNA can easily be chemically modified and has been used as mechanical controllers to regulate molecules/particle assembly − and to perform complex dynamic functions. − Herein, we designed a new DNA reaction circuit based on a stem-loop-integrated DNA hairpin motif (Figure a).…”

Section: Introductionmentioning

confidence: 99%

Assembly Pathway Selection with DNA Reaction Circuits for Programming Multiple Cell–Cell Interactions

Xiao

Lai

et al. 2021

J. Am. Chem. Soc.

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The manipulation of cell–cell interactions promotes the study of multicellular behavior, but it remains a great challenge for programming multicellular assembly in complex reaction pathways with multiple cell types. Here we report a DNA reaction circuit-based approach to cell–surface engineering for the programmable regulation of multiple cell–cell interactions. The DNA circuits are designed on the basis of a stem-loop-integrated DNA hairpin motif, which has the capability of programming diverse molecular self-assembly and disassembly pathways by sequential allosteric activation. Modifying the cell surface with such DNA reaction circuits allows for performing programmable chemical functions on cell membranes and the control of multicellular self-assembly with selectivity. We demonstrate the selective control of targeting the capability of natural killer (NK) cells to two types of tumor cells, which show selectively enhanced cell-specific adaptive immunotherapy efficacy. We hope that our method provides new ideas for the programmable control of multiple cell–cell interactions in complex reaction pathways and potentially promotes the development of cell immunotherapy.

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DNA‐Based Chemical Reaction Networks

Cited by 10 publications

References 126 publications

Isothermal digital detection of microRNAs using background-free molecular circuit

Isothermal digital detection of microRNAs using background-free molecular circuit

Base‐Sequence‐Independent Efficient Redox Switching of Self‐Assembled DNA Nanocages

Assembly Pathway Selection with DNA Reaction Circuits for Programming Multiple Cell–Cell Interactions

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