Hierarchical control of enzymatic actuators using DNA-based switchable memories
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Erik Steur | Alex Joesaar | Lenny H. H. Meijer | Maarten Merkx | Lenny H. H. Meijer | Wouter Engelen | Rutger A. van Santen | Tom F. A. de Greef | E. Steur | M. Merkx | T. D. de Greef | R. V. van Santen | W. Engelen | Alex Joesaar
[1] Y. Sakai,et al. Programming an in vitro DNA oscillator using a molecular networking strategy , 2011, Molecular systems biology.
[2] R. Murray,et al. Timing molecular motion and production with a synthetic transcriptional clock , 2011, Proceedings of the National Academy of Sciences.
[3] Lulu Qian,et al. Supporting Online Material Materials and Methods Figs. S1 to S6 Tables S1 to S4 References and Notes Scaling up Digital Circuit Computation with Dna Strand Displacement Cascades , 2022 .
[4] James E. Ferrell,et al. Bistability in cell signaling: How to make continuous processes discontinuous, and reversible processes irreversible. , 2001, Chaos.
[5] E. Winfree,et al. Construction of an in vitro bistable circuit from synthetic transcriptional switches , 2006, Molecular systems biology.
[6] Liuting Mo,et al. Aptamer-integrated DNA nanostructures for biosensing, bioimaging and cancer therapy. , 2016, Chemical Society reviews.
[7] Domitilla Del Vecchio,et al. A control theoretic framework for modular analysis and design of biomolecular networks , 2013, Annu. Rev. Control..
[8] Weihong Tan,et al. Self-assembled, aptamer-tethered DNA nanotrains for targeted transport of molecular drugs in cancer theranostics , 2013, Proceedings of the National Academy of Sciences.
[9] D. Y. Zhang,et al. Control of DNA strand displacement kinetics using toehold exchange. , 2009, Journal of the American Chemical Society.
[10] Teruo Fujii,et al. High-throughput and long-term observation of compartmentalized biochemical oscillators. , 2015, Chemical communications.
[11] Dongsheng Liu,et al. Regulation of an enzyme cascade reaction by a DNA machine. , 2013, Small.
[12] Teruo Fujii,et al. Bottom-up construction of in vitro switchable memories , 2012, Proceedings of the National Academy of Sciences.
[13] Alexander Prokup,et al. Interfacing synthetic DNA logic operations with protein outputs. , 2014, Angewandte Chemie.
[14] Dongsheng Liu,et al. Reversible regulation of protein binding affinity by a DNA machine. , 2012, Journal of the American Chemical Society.
[15] D. Y. Zhang,et al. Engineering Entropy-Driven Reactions and Networks Catalyzed by DNA , 2007, Science.
[16] Takeshi Norimatsu,et al. Encoding and Decoding , 2016 .
[17] Travis A. Meyer,et al. Regulation at a distance of biomolecular interactions using a DNA origami nanoactuator , 2016, Nature Communications.
[18] E. Winfree,et al. Synthetic in vitro transcriptional oscillators , 2011, Molecular systems biology.
[19] Katherine C. Chen,et al. Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell. , 2003, Current opinion in cell biology.
[20] Wendell A Lim,et al. Design principles of regulatory networks: searching for the molecular algorithms of the cell. , 2013, Molecular cell.
[21] Cuichen Wu,et al. A logical molecular circuit for programmable and autonomous regulation of protein activity using DNA aptamer-protein interactions. , 2012, Journal of the American Chemical Society.
[22] David A Sivak,et al. Transcription factor competition allows embryonic stem cells to distinguish authentic signals from noise. , 2015, Cell systems.
[23] Ying-Ja Chen,et al. DNA sequencing by denaturation: principle and thermodynamic simulations. , 2009, Analytical biochemistry.
[24] M. Ghadiri,et al. Design of molecular logic devices based on a programmable DNA-regulated semisynthetic enzyme. , 2007, Angewandte Chemie.
[25] Tom F A de Greef,et al. Programmable chemical reaction networks: emulating regulatory functions in living cells using a bottom-up approach. , 2015, Chemical Society reviews.
[26] Carsten Peterson,et al. Transcriptional Dynamics of the Embryonic Stem Cell Switch , 2006, PLoS Comput. Biol..
[27] Domitilla Del Vecchio,et al. Retroactivity controls the temporal dynamics of gene transcription. , 2013, ACS synthetic biology.
[28] Tom F. A. de Greef,et al. Antibody-controlled actuation of DNA-based molecular circuits , 2017, Nature Communications.
[29] Cuichen Wu,et al. A cascade reaction network mimicking the basic functional steps of adaptive immune response , 2015, Nature chemistry.
[30] N. Seeman,et al. A Proximity-Based Programmable DNA Nanoscale Assembly Line , 2010, Nature.
[31] Teruo Fujii,et al. Programming an in vitro DNA oscillator using a molecular networking strategy , 2011, Molecular Systems Biology.
[32] Darko Stefanovic,et al. Deoxyribozyme-based logic gates. , 2002, Journal of the American Chemical Society.
[33] G. Lahav,et al. Encoding and Decoding Cellular Information through Signaling Dynamics , 2013, Cell.
[34] Samanthe M. Lyons,et al. Loads Bias Genetic and Signaling Switches in Synthetic and Natural Systems , 2014, PLoS Comput. Biol..
[35] C. Townsend,et al. An externally tunable bacterial band-pass filter , 2009, Proceedings of the National Academy of Sciences.
[36] Maarten Merkx,et al. DNA-directed control of enzyme-inhibitor complex formation: a modular approach to reversibly switch enzyme activity. , 2015, ACS synthetic biology.
[37] Teruo Fujii,et al. Predator-prey molecular ecosystems. , 2013, ACS nano.
[38] P. Holmes,et al. Nonlinear Oscillations, Dynamical Systems, and Bifurcations of Vector Fields , 1983, Applied Mathematical Sciences.
[39] G. Seelig,et al. Enzyme-Free Nucleic Acid Logic Circuits , 2022 .
[40] Eduardo Sontag,et al. Modular cell biology: retroactivity and insulation , 2008, Molecular systems biology.
[41] J. Doyle,et al. Robust perfect adaptation in bacterial chemotaxis through integral feedback control. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[42] Alan Saghatelian,et al. DNA detection and signal amplification via an engineered allosteric enzyme. , 2003, Journal of the American Chemical Society.
[43] P. J. Holmes,et al. Nonlinear Oscillations, Dynamical Systems, and Bifurcations of Vector Fields , 1983, Applied Mathematical Sciences.
[44] Teruo Fujii,et al. Quencher-free multiplexed monitoring of DNA reaction circuits , 2012, Nucleic acids research.
[45] Tae J. Lee,et al. A bistable Rb–E2F switch underlies the restriction point , 2008, Nature Cell Biology.
[46] Teruo Fujii,et al. Spatial waves in synthetic biochemical networks. , 2013, Journal of the American Chemical Society.
[47] H. Pei,et al. Self-assembled multivalent DNA nanostructures for noninvasive intracellular delivery of immunostimulatory CpG oligonucleotides. , 2011, ACS nano.
[48] Jehoshua Bruck,et al. Neural network computation with DNA strand displacement cascades , 2011, Nature.
[49] Carl Prévost-Tremblay,et al. Antibody-powered nucleic acid release using a DNA-based nanomachine , 2017, Nature Communications.
[50] Richard M. Murray,et al. Synthetic circuit for exact adaptation and fold-change detection , 2014, Nucleic acids research.
[51] Lenny H. H. Meijer,et al. Nucleic acid detection using BRET-beacons based on bioluminescent protein–DNA hybrids† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c6cc10032e Click here for additional data file. , 2017, Chemical communications.
[52] Xi Chen,et al. Stacking nonenzymatic circuits for high signal gain , 2013, Proceedings of the National Academy of Sciences.
[53] Jayajit Das,et al. Digital Signaling and Hysteresis Characterize Ras Activation in Lymphoid Cells , 2009, Cell.
[54] Hao Yan,et al. A DNA tweezer-actuated enzyme nanoreactor , 2013, Nature Communications.