An Object Oriented Simulation of Real Occurring Molecular Biological Processes for DNA Computing and Its Experimental Verification

Hinze, Thomas; Hatnik, Uwe; Sturm, Monika

doi:10.1007/3-540-48017-x_1

Cited by 6 publications

(1 citation statement)

References 2 publications

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“…As a next step, their combination to achieve higher integrated problem-specific designs will be investigated. A DNA-based solution to the knapsack problem in vitro was introduced in (Hinze et al, 2002). An alternative approach in vivo generates a variety of encoding plasmids that are translated into proteins (Henkel et al, 2007).…”

Section: Related Workmentioning

confidence: 99%

BIOSIGNAL-BASED COMPUTING BY AHL INDUCED SYNTHETIC GENE REGULATORY NETWORKS - From an in vivo Flip-Flop Implementation to Programmable Computing Agents

Hinze¹,

Lenser²,

Matsumaru³

et al. 2008

Proceedings of the First International Conference on Bio-Inspired Systems and Signal Processing

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Abstract:Gene regulatory networks (GRNs) form naturally predefined and optimised computational units envisioned to act as biohardware able to solve hard computational problems efficiently. This interplay of GRNs via signalling pathways allows the consideration as well as implementation of interconnection-free and fault tolerant programmable computing agents. It has been quantitatively shown in an in vivo study that a reporter gene encoding the green fluorescent protein (gfp) can be switched between high and low expression states, thus mimicking a NAND gate and a RS flip-flop. This was accomplished by incorporating the N-acyl homoserine lactone (AHL) sensing lux operon from Vibrio fischeri along with a toggle switch in Escherichia coli. gfp expression was quantified using flow cytometry. The computational capacity of this approach is extendable by coupling several logic gates and flip-flops. We demonstrate its feasibility by designing a finite automaton capable of solving a knapsack problem instance.

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Section: Related Workmentioning

confidence: 99%