Abstract
This paper presents a microfluidic device specially designed for DNA tile self-assembly. The DNA tile is one of the most promising building blocks for complex nanostructure, which can be used as a molecular computer or a scaffold for functional molecular machineries. In order to build desired nanostructure, it is necessary to realize errorless self-assembly under thermal fluctuation. We propose a method to directly control environmental parameters of DNA self-assembly such as concentration of each monomer tile and temperature in the reaction chamber by using a microfluidic device. The proposed device is driven by a capillary pump and has an open reaction chamber which enables real-time observation by AFM. Results of preliminary experiments to evaluate performance of the device will be reported.
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References
Adleman, L.: Molecular Computation of Solutions to Combinatorial Problems. Science 266, 1021–1024 (1994)
Winfree, E.: Algorithmic Self-Assembly of DNA, Ph.D Thesis, California Institute of Technology (1998)
Winfree, E., Yang, X., Seeman, N.C.: Universal Computation via Self-assembly of DNA: Some Theory and Experiments. DNA based Computers 2. In: DIMACS Series in Discrete Mathematics and Theoretical Computer Science, vol. 44, pp. 191–213 (1999)
Juncker, D., Schmid, H., Drechsler, U., Wolf, H., Wolf, M., Michel, B., de Rooij, N., Delamarche, E.: Autonomous Microfluidic Cappilary System: Analytical Chemistry 74(24), 6139–6144 (2002)
Delamarche, E., Bernard, A., Schmid, H., Michel, B., Biebuyck, H.: Science 276, 779–781 (1997)
Smith, E.A., Wanat, M.J., Cheng, Y., Barreira, S.V.P., Frutos, A.G., Corn, R.M.: Spectroscopic Characterization, and Application of Sulfhydryl-Terminated Alkanethiol Monolayers for the Chemical Attachment of DNA onto Gold Surfaces: Langmuir, vol. 17, pp. 2502–2507 (2001)
Chworos, A., Severcan, I., Koyfman, A.Y., Weinkam, Y., Oroudjev, E., Hansma, H.G., Jaeger, L.: Building Programmable Jigsaw Puzzles with RNA. Science 306, 2068–2072 (2004)
Shih, W.M., Quispe, J.D., Joyce, G.F.: A 1.7-kilobase single-stranded DNA that folds into a nanoscale octahedron. Nature 427, 618–621 (2004)
Winfree, E., Liu, F., Wenzler, L., Seeman, N.C.: Design and self-assembly of two-dimensional DNA crystals. Nature 394, 539–544 (1998)
Yamamoto, T., Fujii, T., Nojima, T.: PDMS-glass hybrid microreactor array with embedded temperature control device. Application to cell-free protein synthesis: Lab on a Chip 2(4), 197–202
Several papers related to error suppression of DNA tiles are presented. In: Ferretti, C., et al. (eds.) Preliminary Proceedings of Tenth International Meeting on DNA Computing, Milan (2004)
Reif, J.H.: Local Parallel Biomolecular Computation. In: Proc. DNA-Based Computers, III, June 23-26. University of Pennsylvania (1997)
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© 2006 Springer-Verlag Berlin Heidelberg
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Somei, K., Kaneda, S., Fujii, T., Murata, S. (2006). A Microfluidic Device for DNA Tile Self-assembly. In: Carbone, A., Pierce, N.A. (eds) DNA Computing. DNA 2005. Lecture Notes in Computer Science, vol 3892. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11753681_25
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DOI: https://doi.org/10.1007/11753681_25
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-34161-1
Online ISBN: 978-3-540-34165-9
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