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Fabrication and operation of kinesin-1-powered biocomputation networks

: Meinecke, C.; Korten, Till; Heldt, G.; Reuter, D.; Diez, Stefan

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New directions in biocomputation. Program, abstracts and participants : Dresden, Germany, September 12-13, 2017
Dresden, 2017
Workshop "New Directions in Biocomputation" <2017, Dresden>
Abstract, Elektronische Publikation
Fraunhofer ENAS ()

Network-based biocomputation relies on accurate guiding of cytoskeletal filaments. Here we report on the fabrication and operation of a biocomputation network that encodes the specific instance {3, 5, 6, 10} of a classical nondeterministic-polynomialtime complete (“NP-complete”) problem, the subset sum problem. The nanofabricated structures rely on a combination of physical and chemical guiding of the gliding of microtubules along channels. To achieve this the material stack is designed such that protein attachment to the walls of the nanochannels can be efficiently blocked such that only the bottom of the nanochannels is coated with the motor protein kinesin-1. Optimizations in the nanofabrication have greatly improved the smoothness of channel walls and floor, while optimizations in motor-protein expression and purification have improved the activity of the motor proteins. Together, these optimizations increased the longevity as well as the reliability of our devices. In the future, this will allow us to fabricate and operate large-scale networks that are able to solve substantial computational problems.