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Résultat majeur : COMPUTING WITH SYNTHETIC PROTOCELLS
COMPUTING WITH SYNTHETIC PROTOCELLS
13 mai 2015

Alexis Courbet, Franck Molina and Patrick Amar
In this article we present a new kind of computing device that uses biochemical reactions networks as building blocks to implement logic gates. The architecture of a computing machine relies on these generic and composable building blocks, computation units, that can be used in multiple instances to perform complex boolean functions. Standard logical operations are implemented by biochemical networks, encapsulated and insulated within synthetic vesicles called protocells. These protocells are capable of exchanging energy and information with each other through transmembrane electron transfer. In the paradigm of computation we propose, protoputing, a machine can solve only one problem and therefore has to be built specifically. Thus, the programming phase in the standard computing paradigm is represented in our approach by the set of assembly instructions (specific attachments) that directs the wiring of the protocells that constitute the machine itself. To demonstrate the computing power of protocellular machines, we apply it to solve a NP-complete problem, known to be very demanding in computing power, the 3-SAT problem. We show how to program the assembly of a machine that can verify the satisfiability of a given boolean formula. Then we show how to use the massive parallelism of these machines to verify in less than 20 min all the valuations of the input variables and output a fluorescent signal when the formula is satisfiable or no signal at all otherwise.



Activités de recherche
  ° biologie de synthese

Equipe
  ° Bioinformatique

Contact
  ° AMAR Patrick
Résultats majeurs
COMPUTER‐AIDED BIOCHEMICAL PROGRAMMING OF SYNTHETIC MICROREACTORS AS DIAGNOSTIC DEVICES
27 avril 2018
Alexis Courbet, Patrick Amar, Francois Fages, Eric Renard, Franck Molina Mol Syst Biol. (2018) 14:

BEST PAPER AWARD: SELF-STABILIZING DISTRIBUTED STABLE MARRIAGE
05 novembre 2017
SSS 2017, M. Laveau, G. Manoussakis, J. Beauquier, T. Bernard, J. Burman, J. Cohen, and L. Pilard

BEST PAPER AWARD INTELLI 2017: A MODEL OF PULSATION FOR EVOLUTIVE FORMALIZING INCOMPLETE INTELLIGENT SYSTEMS
27 juillet 2017
authors: Marta Franova, Yves Kodratoff

INFORMATION-GEOMETRIC OPTIMIZATION ALGORITHMS: A UNIFYING PICTURE VIA INVARIANCE PRINCIPLES
02 mai 2017
Yann Ollivier, Ludovic Arnold, Anne Auger, Nikolaus Hansen - JMLR 18(18):1−65, 2017.

FORMAL MUTATION TESTING FOR CIRCUS
21 avril 2016
Alex Donizeti Betez Alberto, Ana Cavalcanti, Marie-Claude Gaudel, Adenilso Simao Journal of Infor