Elementary Arithmetic Operations by Enzymes: A Model for Metabolic Pathway Based Computing

Baron, Ronan; Lioubashevski, Oleg; Katz, Eugenii; Niazov, Tamara; Willner, Itamar

doi:10.1002/ange.200503314

Cited by 53 publications

(51 citation statements)

References 31 publications

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“…Most circuits implemented in laboratory experiments so far are one-bit half-adders. Half-adders and their component gates are realised using enzymatic networks [38,33,10,30,27], photonic molecular devices [7,8,25], quantum logic inside a single molecule [18], molecular structural circuits [19,32], acellular slime mould [40,3,28,41], nuclear magnetic resonance [36], ribosomes and mRNAs [35], peptide networks [9], and excitable chemical media [23,21,16,22]. In excitable chemical media signal careers are excitation waves; the signals are modified via interaction between the excitation waves or wave-fragments.…”

Section: Introductionmentioning

confidence: 99%

On Half-Adders Based on Fusion of Signal Carriers: Excitation, Fluidics, and Electricity

Adamatzky¹

2016

ComplexSystems

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Section: Introductionmentioning

confidence: 99%

On Half-Adders Based on Fusion of Signal Carriers: Excitation, Fluidics, and Electricity

Adamatzky¹

2016

ComplexSystems

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“…Various binary logic gates have been demonstrated, including AND, OR, NAND, NOR, CNOT, XOR, INHIBIT, etc. [6][7][8][9] Such gates were also connected in small networks, [24][25][26][27][28][29] some if which carried out simple computational 49,50 and information storage 51,52 steps. to have a well-defined (practically zero slope) pre-threshold region for low inputs, and to preserve the sensitivity (the slope of the output curve) for large inputs.…”

Section: Introductionmentioning

confidence: 99%

Kinetic Model for a Threshold Filter in an Enzymatic System for Bioanalytical and Biocomputing Applications

Privman¹,

Domanskyi²,

Mailloux³

et al. 2014

J. Phys. Chem. B

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A recently experimentally observed biochemical "threshold filtering" mechanism by processes catalyzed by the enzyme malate dehydrogenase is explained in terms of a model that incorporates an unusual mechanism of inhibition of this enzyme that has a reversible mechanism of action. Experimental data for a system in which the output signal is produced by biocatalytic processes of the enzyme glucose dehydrogenase are analyzed to verify the model's validity. We also establish that fast reversible conversion of the output product to another compound, without the additional inhibition, cannot on its own result in filtering.

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“…The recently developed concept of enzymatic logic gates, [1][2][3] which are a part of general research areas of biochemical [4][5][6] and chemical computing, [7][8][9] is aimed at controlling various processes and systems through logically processed biochemical signals. Information processing by biochemical reactions that perform Boolean logic operations has resulted in the design of various enzymatic logic gates (for example, AND, OR, XOR, INHIB, NOR).…”

Section: Introductionmentioning

confidence: 99%

Biomolecular Oxidative Damage Activated by Enzymatic Logic Systems: Biologically Inspired Approach

et al. 2009

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Systems that perform oxidative damage to biomolecules through catalytic cascades in the presence of iron-redox labile species were activated by enzymatic logic gates that process chemical input signals according to built-in logic operations. AND/OR enzymatic logic gates were composed of glucose oxidase (GOx) and GOx/esterase, respectively. The AND/OR logic functions of the enzyme gates were activated by application of glucose-oxygen and glucose-ethyl acetate input signals, respectively. The enzymatic logic gates, upon activation by specific patterns of the chemical input signals, produced acidic solutions and triggered release of redox labile iron species from a complex that is unstable under acidic conditions. This resulted in the activation of a catalytic cascade, which produced reactive oxygen species (ROS) and subsequently yielded oxidative damage in biomolecules. Functional integration of the enzyme-based logic systems with the catalytic redox cascade that performs damage in biomolecules on demand is a first step towards "smart" systems capable of programmed detection, identification, and neutralization of potential biohazards.

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Elementary Arithmetic Operations by Enzymes: A Model for Metabolic Pathway Based Computing

Cited by 53 publications

References 31 publications

On Half-Adders Based on Fusion of Signal Carriers: Excitation, Fluidics, and Electricity

On Half-Adders Based on Fusion of Signal Carriers: Excitation, Fluidics, and Electricity

Kinetic Model for a Threshold Filter in an Enzymatic System for Bioanalytical and Biocomputing Applications

Biomolecular Oxidative Damage Activated by Enzymatic Logic Systems: Biologically Inspired Approach

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