Article (Scientific journals)
Continuous variables logic via coupled automata using a DNAzyme cascade with feedback
Lilienthal, Sivan; Orbach, Ron; Willner, Itamar et al.
2017In Chemical Science, 8, p. 2161-2168
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Keywords :
Molecular Logic; Continuous logic; DNAzymes
Abstract :
[en] The concentration of molecules can be changed by chemical reactions and thereby offer a continuous readout. Yet computer architecture is cast in textbooks in terms of binary valued, Boolean variables. To enable reactive chemical systems to compute we show how, using the Cox interpretation of probability theory, one can transcribe the equations of chemical kinetics as a sequence of coupled logic gates operating on continuous variables. It is discussed how the distinct chemical identity of a molecule allows us to create a common language for chemical kinetics and Boolean logic. Specifically, the logic AND operation is shown to be equivalent to a bimolecular process. The logic XOR operation represents chemical processes that take place concurrently. The values of the rate constants enter the logic scheme as inputs. By designing a reaction scheme with a feedback we endow the logic gates with a built in memory because their output then depends on the input and also on the present state of the system. Technically such a logic machine is an automaton. We report an experimental realization of three such coupled automata using a DNAzyme multilayer signaling cascade. A simple model verifies analytically that our experimental scheme provides an integrator generating a power series that is third order in time. The model identifies two parameters that govern the kinetics and shows how the initial concentrations of the substrates are the coefficients in the power series.
Research center :
Chimie Physique Theorique
Disciplines :
Chemistry
Author, co-author :
Lilienthal, Sivan;  Hebrew University of Jerusalem > Institute of Chemistry
Orbach, Ron;  Hebrew University of Jerusalem > Institute of Chemistry
Willner, Itamar;  Hebrew University of Jerusalem > Institute of Chemistry
Remacle, Françoise  ;  Université de Liège > Département de chimie (sciences) > Laboratoire de chimie physique théorique
Levine, Raphaël David;  Hebrew University of Jerusalem > Institute of Chemistry
Language :
English
Title :
Continuous variables logic via coupled automata using a DNAzyme cascade with feedback
Publication date :
2017
Journal title :
Chemical Science
ISSN :
2041-6520
eISSN :
2041-6539
Publisher :
Royal Society of Chemistry, Cambridge, United Kingdom
Volume :
8
Pages :
2161-2168
Peer reviewed :
Peer Reviewed verified by ORBi
European Projects :
FP7 - 317707 - MULTI - MULTI-valued and parallel molecular logic
Name of the research project :
Multi valued and parallel molecular logic
Funders :
DG RDT - Commission Européenne. Direction Générale de la Recherche et de l'Innovation [BE]
CE - Commission Européenne [BE]
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since 27 April 2017

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