DNA reservoir computing: a novel molecular computing approach

DOI10.1007/978-3-319-01928-4_6MaRDI QIDQ5168500zbMATH OpenOpenAlexFDO

Authors Alireza Goudarzi, Matthew R. Lakin, Darko Stefanovic

Publication date 7 July 2014

Published in Lecture Notes in Computer Science (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1306.5998

Mathematics Subject Classification ID

Modes of computation (nondeterministic, parallel, interactive, probabilistic, etc.) (68Q10)

Abstract: We propose a novel molecular computing approach based on reservoir computing. In reservoir computing, a dynamical core, called a reservoir, is perturbed with an external input signal while a readout layer maps the reservoir dynamics to a target output. Computation takes place as a transformation from the input space to a high-dimensional spatiotemporal feature space created by the transient dynamics of the reservoir. The readout layer then combines these features to produce the target output. We show that coupled deoxyribozyme oscillators can act as the reservoir. We show that despite using only three coupled oscillators, a molecular reservoir computer could achieve 90% accuracy on a benchmark temporal problem.

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Cites work

• Connectivity, dynamics, and memory in reservoir computing with binary and analog neurons
• scientific article; zbMATH DE number 3111121 (Why is no real title available?)
• Opening the black box: low-dimensional dynamics in high-dimensional recurrent neural networks
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• Reservoir computing approaches to recurrent neural network training
• The cerebellum as a liquid state machine
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Cited in

(3)

• A novel DNA computing model based on RecA-mediated triple-stranded DNA structure
• Symbolic computation using cellular automata-based hyperdimensional computing
• Reservoir computing quality: connectivity and topology

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• PRMLT

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