Materials learning from life: concepts for active, adaptive and autonomous molecular systems

Reversing the direction in a light-driven rotary molecular motor

Ruangsupapichat, N., Pollard, M. M., Harutyunyan, S. R., & Feringa, B. L. (2011) · Nature Chemistry · doi:10.1038/nchem.872 · Cited by 196

Biocatalytic Pathway Selection in Transient Tripeptide Nanostructures

Pappas, C. G., Sasselli, I. R., & Ulijn, R. V. (2015) · Angewandte Chemie International Edition · doi:10.1002/anie.201500867 · Cited by 194

Training a molecular automaton to play a game

Pei, R., Matamoros, E., Liu, M., Stefanovic, D., & Stojanovic, M. N. (2010) · Nature Nanotechnology · doi:10.1038/nnano.2010.194 · Cited by 193

Deoxyribozyme-Based Three-Input Logic Gates and Construction of a Molecular Full Adder

Lederman, H., Macdonald, J., Stefanovic, D., & Stojanovic, M. N. (2006) · Biochemistry · doi:10.1021/bi051871u · Cited by 188

Catalyzed Relaxation of a Metastable DNA Fuel

Seelig, G., Yurke, B., & Winfree, E. (2006) · Journal of the American Chemical Society · doi:10.1021/ja0635635 · Cited by 185

Generic Concept to Program the Time Domain of Self-Assemblies with a Self-Regulation Mechanism

Heuser, T., Steppert, A.-K., Molano Lopez, C., Zhu, B., & Walther, A. (2015) · Nano Letters · doi:10.1021/nl5039506 · Cited by 185

Predator–Prey Molecular Ecosystems

Fujii, T., & Rondelez, Y. (2013) · ACS Nano · doi:10.1021/nn3043572 · Cited by 182

Medium Scale Integration of Molecular Logic Gates in an Automaton

Macdonald, J., Li, Y., Sutovic, M., Lederman, H., Pendri, K., Lu, W., Andrews, B. L., Stefanovic, D., & Stojanovic, M. N. (2006) · Nano Letters · doi:10.1021/nl0620684 · Cited by 179

Bottom-up construction of in vitro switchable memories

Padirac, A., Fujii, T., & Rondelez, Y. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1212069109 · Cited by 175

Tomography of Reaction-Diffusion Microemulsions Reveals Three-Dimensional Turing Patterns

Bánsági, T., Vanag, V. K., & Epstein, I. R. (2011) · Science · doi:10.1126/science.1200815 · Cited by 174

Biofuel Cell Controlled by Enzyme Logic Systems

Amir, L., Tam, T. K., Pita, M., Meijler, M. M., Alfonta, L., & Katz, E. (2009) · Journal of the American Chemical Society · doi:10.1021/ja8076704 · Cited by 173

Programmable chemical reaction networks: emulating regulatory functions in living cells using a bottom-up approach

van Roekel, H. W. H., Rosier, B. J. H. M., Meijer, L. H. H., Hilbers, P. A. J., Markvoort, A. J., Huck, W. T. S., & de Greef, T. F. A. (2015) · Chemical Society Reviews · doi:10.1039/c5cs00361j · Cited by 171

Logic Gates and Elementary Computing by Enzymes

Baron, R., Lioubashevski, O., Katz, E., Niazov, T., & Willner, I. (2006) · The Journal of Physical Chemistry A · doi:10.1021/jp0568327 · Cited by 170

Exponential self-replication enabled through a fibre elongation/breakage mechanism

Colomb-Delsuc, M., Mattia, E., Sadownik, J. W., & Otto, S. (2015) · Nature Communications · doi:10.1038/ncomms8427 · Cited by 170

Light‐Driven Conformational Switch of i‐Motif DNA

Liu, H., Xu, Y., Li, F., Yang, Y., Wang, W., Song, Y., & Liu, D. (2007) · Angewandte Chemie International Edition · doi:10.1002/anie.200604589 · Cited by 169

Multi-armed vortices in an active chemical medium

Agladze, K. I., & Krinsky, V. I. (1982) · Nature · doi:10.1038/296424a0 · Cited by 167

Orthogonal Light‐Induced Self‐Assembly of Nanoparticles using Differently Substituted Azobenzenes

Manna, D., Udayabhaskararao, T., Zhao, H., & Klajn, R. (2015) · Angewandte Chemie International Edition · doi:10.1002/anie.201502419 · Cited by 167

Controlling the Structure and Length of Self‐Synthesizing Supramolecular Polymers through Nucleated Growth and Disassembly

Pal, A., Malakoutikhah, M., Leonetti, G., Tezcan, M., Colomb‐Delsuc, M., Nguyen, V. D., van der Gucht, J., & Otto, S. (2015) · Angewandte Chemie International Edition · doi:10.1002/anie.201501965 · Cited by 165

OSCILLATORY ENZYMES

Goldbeter, A., & Caplan, S. R. (1976) · Annual Review of Biophysics and Bioengineering · doi:10.1146/annurev.bb.05.060176.002313 · Cited by 165

Increased Speed of Rotation for the Smallest Light-Driven Molecular Motor

ter Wiel, M. K. J., van Delden, R. A., Meetsma, A., & Feringa, B. L. (2003) · Journal of the American Chemical Society · doi:10.1021/ja036782o · Cited by 163

A Programmable Molecular Robot

Muscat, R. A., Bath, J., & Turberfield, A. J. (2011) · Nano Letters · doi:10.1021/nl1037165 · Cited by 161

Stimuli-Responsive Hydrogel Membranes Coupled with Biocatalytic Processes

Tokarev, I., Gopishetty, V., Zhou, J., Pita, M., Motornov, M., Katz, E., & Minko, S. (2009) · ACS Applied Materials & Interfaces · doi:10.1021/am800251a · Cited by 161

Synchronization of Chemical Micro-oscillators

Toiya, M., González-Ochoa, H. O., Vanag, V. K., Fraden, S., & Epstein, I. R. (2010) · The Journal of Physical Chemistry Letters · doi:10.1021/jz100238u · Cited by 158

Design of a Mass Transport Surface Utilizing Peristaltic Motion of a Self-Oscillating Gel

Murase, Y., Maeda, S., Hashimoto, S., & Yoshida, R. (2008) · Langmuir · doi:10.1021/la8029006 · Cited by 152

Engineering Applications of Biomolecular Motors

Hess, H. (2011) · Annual Review of Biomedical Engineering · doi:10.1146/annurev-bioeng-071910-124644 · Cited by 138

“Chemical Transformers” from Nanoparticle Ensembles Operated with Logic

Motornov, M., Zhou, J., Pita, M., Gopishetty, V., Tokarev, I., Katz, E., & Minko, S. (2008) · Nano Letters · doi:10.1021/nl802059m · Cited by 137

Pattern transformation with DNA circuits

Chirieleison, S. M., Allen, P. B., Simpson, Z. B., Ellington, A. D., & Chen, X. (2013) · Nature Chemistry · doi:10.1038/nchem.1764 · Cited by 137

Nanoparticle Oscillations and Fronts

Lagzi, I., Kowalczyk, B., Wang, D., & Grzybowski, B. A. (2010) · Angewandte Chemie International Edition · doi:10.1002/anie.201004231 · Cited by 137

Catalytic nucleic acids (DNAzymes) as functional units for logic gates and computing circuits: from basic principles to practical applications

Orbach, R., Willner, B., & Willner, I. (2015) · Chemical Communications · doi:10.1039/c4cc09874a · Cited by 137

Biased excitable networks: how cells direct motion in response to gradients

Iglesias, P. A., & Devreotes, P. N. (2011) · Current Opinion in Cell Biology · doi:10.1016/j.ceb.2011.11.009 · Cited by 137

Transient signal generation in a self-assembled nanosystem fueled by ATP

Pezzato, C., & Prins, L. J. (2015) · Nature Communications · doi:10.1038/ncomms8790 · Cited by 136

Spatial Waves in Synthetic Biochemical Networks

Padirac, A., Fujii, T., Estevez‐Torres, A., & Rondelez, Y. (2013) · Journal of the American Chemical Society · doi:10.1021/ja403584p · Cited by 135

Reciprocating Power Generation in a Chemically Driven Synthetic Muscle

Howse, J. R., Topham, P. D., Crook, C. J., Gleeson, A. J., Bras, W., Jones, R., & Ryan, A. J. (2005) · Nano Letters · doi:10.1021/nl0520617 · Cited by 133

Sensing of UO22+ and Design of Logic Gates by the Application of Supramolecular Constructs of Ion-Dependent DNAzymes

Moshe, M., Elbaz, J., & Willner, I. (2009) · Nano Letters · doi:10.1021/nl803887y · Cited by 131

Mechanism for a Directional, Processive, and Reversible DNA Motor

Bath, J., Green, S. J., Allen, K. E., & Turberfield, A. J. (2009) · Small · doi:10.1002/smll.200900078 · Cited by 124

Molecules, muscles, and machines: Universal performance characteristics of motors

Marden, J. H., & Allen, L. R. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.022052899 · Cited by 122

Base-Catalyzed Feedback in the Urea−Urease Reaction

Hu, G., Pojman, J. A., Scott, S. K., Wrobel, M. M., & Taylor, A. F. (2010) · The Journal of Physical Chemistry B · doi:10.1021/jp106532d · Cited by 122

Bioinspired Design of Dynamic Materials

Mohammed, J. S., & Murphy, W. L. (2009) · Advanced Materials · doi:10.1002/adma.200803785 · Cited by 118

Dynamic DNA-toolbox reaction circuits: A walkthrough

Baccouche, A., Montagne, K., Padirac, A., Fujii, T., & Rondelez, Y. (2014) · Methods · doi:10.1016/j.ymeth.2014.01.015 · Cited by 116

Enhanced Diffusion of Enzymes that Catalyze Exothermic Reactions

Golestanian, R. (2015) · Physical Review Letters · doi:10.1103/physrevlett.115.108102 · Cited by 113

Photoregulated Wormlike Motion of a Gel

Shinohara, S., Seki, T., Sakai, T., et al. (2008) · Angewandte Chemie International Edition · doi:10.1002/anie.200803046 · Cited by 113

pH-Programmable DNA Logic Arrays Powered by Modular DNAzyme Libraries

Elbaz, J., Wang, F., Remacle, F., & Willner, I. (2012) · Nano Letters · doi:10.1021/nl300051g · Cited by 112

Logic Gates and Antisense DNA Devices Operating on a Translator Nucleic Acid Scaffold

Shlyahovsky, B., Li, Y., Lioubashevski, O., Elbaz, J., & Willner, I. (2009) · ACS Nano · doi:10.1021/nn900085x · Cited by 112

DNA Polymerase as a Molecular Motor and Pump

Sengupta, S., Spiering, M. M., Dey, K. K., Duan, W., Patra, D., Butler, P. J., Astumian, R. D., Benkovic, S. J., & Sen, A. (2014) · ACS Nano · doi:10.1021/nn405963x · Cited by 110

Autonomous Intestine‐Like Motion of Tubular Self‐Oscillating Gel

Shiraki, Y., & Yoshida, R. (2012) · Angewandte Chemie International Edition · doi:10.1002/anie.201202028 · Cited by 109

A Reaction–Diffusion Memory Device

Kaminaga, A., Ванаг, В. К., & Epstein, I. R. (2006) · Angewandte Chemie International Edition · doi:10.1002/anie.200600400 · Cited by 104

Soft actuators of organized self-oscillating microgels

Suzuki, D., Kobayashi, T., Yoshida, R., et al. (2012) · Soft Matter · doi:10.1039/c2sm26477c · Cited by 102

A Self-Assembled Delivery Platform with Post-production Tunable Release Rate

Boekhoven, J., Koot, M., Wezendonk, T. A., Eelkema, R., & van Esch, J. H. (2012) · Journal of the American Chemical Society · doi:10.1021/ja3051876 · Cited by 102

Dynamic Aggregation of Chiral Spinners

Grzybowski, B. A., & Whitesides, G. M. (2002) · Science · doi:10.1126/science.1068130 · Cited by 94

Antagonistic Triblock Polymer Gels Powered by pH Oscillations

Topham, P. D., Howse, J. R., Crook, C. J., Armes, S. P., Jones, R., & Ryan, A. J. (2007) · Macromolecules · doi:10.1021/ma071041j · Cited by 87

Celebrating Soft Matter's 10th Anniversary: Approaches to program the time domain of self-assemblies

Heinen, L., & Walther, A. (2015) · Soft Matter · doi:10.1039/c5sm01660f · Cited by 86

Self-Sustaining Peristaltic Motion on the Surface of a Porous Gel

Takeoka, Y., Watanabe, M., & Yoshida, R. (2003) · Journal of the American Chemical Society · doi:10.1021/ja036904c · Cited by 83

A full-adder based on reconfigurable DNA-hairpin inputs and DNAzyme computing modules

Orbach, R., Wang, F., Lioubashevski, O., Levine, R. D., Remacle, F., & Willner, I. (2014) · Chemical Science · doi:10.1039/c4sc00914b · Cited by 82

Transport and self-organization across different length scales powered by motor proteins and programmed by DNA

Wollman, A. J. M., Sánchez-Cano, C., Carstairs, H. M. J., Cross, R. A., & Turberfield, A. J. (2013) · Nature Nanotechnology · doi:10.1038/nnano.2013.230 · Cited by 81

Synthesis of Programmable Reaction-Diffusion Fronts Using DNA Catalyzers

Zadorin, A. S., Rondelez, Y., Galas, J.-C., & Estevez‐Torres, A. (2015) · Physical Review Letters · doi:10.1103/physrevlett.114.068301 · Cited by 81

Peptide–Metal Organic Framework Swimmers that Direct the Motion toward Chemical Targets

Ikezoe, Y., Fang, J., Wasik, T. L., Shi, M., Uemura, T., Kitagawa, S., & Matsui, H. (2015) · Nano Letters · doi:10.1021/acs.nanolett.5b00969 · Cited by 81

Chemical Oscillators in Structured Media

Epstein, I. R., Ванаг, В. К., Balazs, A. C., Kuksenok, O., Dayal, P., & Bhattacharya, A. (2011) · Accounts of Chemical Research · doi:10.1021/ar200251j · Cited by 75

Wave Patterns Driven by Chemomechanical Instabilities in Responsive Gels

Labrot, V., Kepper, P. D., Boissonade, J., Szalai, I., & Gauffre, F. (2005) · The Journal of Physical Chemistry B · doi:10.1021/jp055095b · Cited by 75

A survey of advancements in nucleic acid-based logic gates and computing for applications in biotechnology and biomedicine

Wu, C. S., Wan, S., Hou, W., Zhang, L., Xu, J., Cui, C., Wang, Y., Hu, J. J., & Tan, W. (2015) · Chemical Communications · doi:10.1039/c4cc10047f · Cited by 75

Vesicle-to-Micelle Oscillations and Spatial Patterns

Lagzi, I., Wang, D., Kowalczyk, B., & Grzybowski, B. A. (2010) · Langmuir · doi:10.1021/la102635w · Cited by 73

Molecular Propulsion: Chemical Sensing and Chemotaxis of DNA Driven by RNA Polymerase

Yu, H., Jo, K., Kounovsky‐Shafer, K. L., de Pablo, J. J., & Schwartz, D. C. (2009) · Journal of the American Chemical Society · doi:10.1021/ja900372m · Cited by 73

Chemo-responsive, self-oscillating gels that undergo biomimetic communication

Kuksenok, O., Dayal, P., Bhattacharya, A., Yashin, V. V., Deb, D., Chen, I. C., Vliet, K. J. V., & Balazs, A. C. (2013) · Chemical Society Reviews · doi:10.1039/c3cs35497k · Cited by 72

An Organic-Based pH Oscillator

Kovacs, K., McIlwaine, R. E., Scott, S. K., & Taylor, A. F. (2007) · The Journal of Physical Chemistry A · doi:10.1021/jp068534v · Cited by 71

Design and control of patterns in reaction-diffusion systems

Ванаг, В. К., & Epstein, I. R. (2008) · Chaos An Interdisciplinary Journal of Nonlinear Science · doi:10.1063/1.2900555 · Cited by 69

Detection of Metal Ions (Cu2+, Hg2+) and Cocaine by Using Ligation DNAzyme Machinery

Wang, F., Orbach, R., & Willner, I. (2012) · Chemistry - A European Journal · doi:10.1002/chem.201201479 · Cited by 67

Scaling down DNA circuits with competitive neural networks

Genot, A. J., Fujii, T., & Rondelez, Y. (2013) · Journal of The Royal Society Interface · doi:10.1098/rsif.2013.0212 · Cited by 66

Systematic design of chemical oscillators. 26. A new halogen-free chemical oscillator: the reaction between sulfide ion and hydrogen peroxide in a CSTR

Orbán, M., & Epstein, I. R. (1985) · Journal of the American Chemical Society · doi:10.1021/ja00294a016 · Cited by 66

Controlling the dynamic behavior of heterogeneous self-oscillating gels

Yashin, V. V., Suzuki, S., Yoshida, R., & Balazs, A. C. (2012) · Journal of Materials Chemistry · doi:10.1039/c2jm32065g · Cited by 64

pH Wave-Front Propagation in the Urea-Urease Reaction

Wrobel, M. M., Bánsági, T., Scott, S. K., Taylor, A. F., Bounds, C., Carranza, A., & Pojman, J. A. (2012) · Biophysical Journal · doi:10.1016/j.bpj.2012.06.020 · Cited by 63

Responsive and Nonequilibrium Nanomaterials

Warren, S. C., Guney-Altay, O., & Grzybowski, B. A. (2012) · The Journal of Physical Chemistry Letters · doi:10.1021/jz300584c · Cited by 62

Molecular Stirrers in Action

Chen, J., Kistemaker, J. C. M., Robertus, J., & Feringa, B. L. (2014) · Journal of the American Chemical Society · doi:10.1021/ja507711h · Cited by 61

Threshold Sensing through a Synthetic Enzymatic Reaction–Diffusion Network

Semenov, S. N., Markvoort, A. J., de Greef, T. F. A., & Huck, W. T. S. (2014) · Angewandte Chemie International Edition · doi:10.1002/anie.201402327 · Cited by 59

Active, motor-driven mechanics in a DNA gel

Bertrand, O. J. N., Fygenson, D. K., & Saleh, O. A. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1208732109 · Cited by 58

A New Halogen-Free Chemical Oscillator: The Reaction between Sulfide Ion and Hydrogen Peroxide in a CSTR'

Orbán, M., & Epstein, I. R. (1985) · Journal of the American Chemical Society · Cited by 55

Oscillatory dynamics induced in a responsive gel by a non-oscillatory chemical reaction: experimental evidence

Horváth, J., Szalai, I., Boissonade, J., & Kepper, P. D. (2011) · Soft Matter · doi:10.1039/c1sm05226h · Cited by 53

Computing with Competition in Biochemical Networks

Genot, A. J., Fujii, T., & Rondelez, Y. (2012) · Physical Review Letters · doi:10.1103/physrevlett.109.208102 · Cited by 50

Fronts and pulses in an enzymatic reaction catalyzed by glucose oxidase

Míguez, D. G., Ванаг, В. К., & Epstein, I. R. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0611438104 · Cited by 43

Designing an enzymatic oscillator: Bistability and feedback controlled oscillations with glucose oxidase in a continuous flow stirred tank reactor

Ванаг, В. К., Míguez, D. G., & Epstein, I. R. (2006) · The Journal of Chemical Physics · doi:10.1063/1.2378833 · Cited by 39

A DNA Nanotransport Device Powered by Polymerase ϕ29

Sahu, S., LaBean, T. H., & Reif, J. H. (2008) · Nano Letters · doi:10.1021/nl802294d · Cited by 37

New family of homogeneous chemical oscillators: chlorite–iodate–substrate

Orbán, M., Kepper, P. D., Epstein, I. R., & Kustin, K. (1981) · Nature · doi:10.1038/292816a0 · Cited by 34

Influence of Molecular Structure on the Properties of Out-of-Equilibrium Oscillating Enzymatic Reaction Networks

Wong, A. S. Y., Postma, S. G. J., Vialshin, I. N., Semenov, S. N., & Huck, W. T. S. (2015) · Journal of the American Chemical Society · doi:10.1021/jacs.5b08129 · Cited by 32

Small Molecule Signals that Direct the Route of a Molecular Cargo

Muscat, R. A., Bath, J., & Turberfield, A. J. (2012) · Small · doi:10.1002/smll.201201055 · Cited by 28

Ultrasensitivity by Molecular Titration in Spatially Propagating Enzymatic Reactions

Semenov, S. N., Markvoort, A. J., Gevers, W. B. L., Piruska, A., de Greef, T. F. A., & Huck, W. T. S. (2013) · Biophysical Journal · doi:10.1016/j.bpj.2013.07.002 · Cited by 25

Energy Propagation Through a Protometabolism Leading to the Local Emergence of Singular Stationary Concentration Profiles

Emond, M., Saux, T. L., Allemand, J., Pelupessy, P., Plasson, R., & Jullien, L. (2012) · Chemistry - A European Journal · doi:10.1002/chem.201201974 · Cited by 24

Nanopropulsion by Biocatalytic Self-Assembly

Leckie, J., Hope, A., Hughes, M., Debnath, S., Fleming, S., Wark, A. W., Ulijn, R. V., & Haw, M. (2014) · ACS Nano · doi:10.1021/nn503875y · Cited by 19

Localized Chemical Wave Emission and Mode Switching in a Patterned Excitable Medium

Bishop, K. J. M., & Grzybowski, B. A. (2006) · Physical Review Letters · doi:10.1103/physrevlett.97.128702 · Cited by 18

Glycolytic pH oscillations in a flow reactor

Hocker, C. G., Epstein, I. R., Kustin, K., et al. (1994) · Biophysical Chemistry · doi:10.1016/s0301-4622(94)87005-5 · Cited by 11

Systems chemistry

Ashkenasy, G., Hermans, T. M., Otto, S., & Taylor, A. F. (2017) · Chemical Society Reviews · doi:10.1039/c7cs00117g · Cited by 595

DNA Functional Materials Assembled from Branched DNA: Design, Synthesis, and Applications

Dong, Y., Yao, C., Zhu, Y., Yang, L., Luo, D., & Yang, D. (2020) · Chemical Reviews · doi:10.1021/acs.chemrev.0c00294 · Cited by 533

The rise of intelligent matter

Kaspar, C., Ravoo, B. J., van der Wiel, W. G., Wegner, S. V., & Pernice, W. H. P. (2021) · Nature · doi:10.1038/s41586-021-03453-y · Cited by 526

Chemically Fueled Self‐Assembly in Biology and Chemistry

Das, K., Gabrielli, L., & Prins, L. J. (2021) · Angewandte Chemie International Edition · doi:10.1002/anie.202100274 · Cited by 336

A dissipative pathway for the structural evolution of DNA fibres

Rizzuto, F. J., Platnich, C. M., Luo, X., Shen, Y., Dore, M. D., Lachance-Brais, C., Guarné, A., Cosa, G., & Sleiman, H. F. (2021) · Nature Chemistry · doi:10.1038/s41557-021-00751-w · Cited by 120