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Overview of New Structures for DNA-Based Nanofabrication and Computation

Thomas H. LaBean*, a, Hao Yanb, Sung Ha Parka, Liping Fenga, Peng Yina, Hanying Lia, Sang Jung Ahna, Dage Liua, Xiaoju Guana, and John H. Reifa

aDuke University
Durham, NC 27708 USA

bArizona State University

This is an abstract for a presentation given at the
1st Conference on Advanced Nanotechnology:
Research, Applications, and Policy

 

This poster presents an overview of recent experimental progress by the Duke DNA NanoTech Group in our efforts to create novel DNA nanostructures for computational self-assemblies as well as for fabrication of functional nano-patterned materials. We have prototyped a DNA tile type known as the 4x4 (a cross-like structure composed of four four-arm junctions) upon which we have deposited metal to form highly conductive nanowires and also are adapting multi-tile 4x4 sets for a variety of computational applications. We have recently described a DNA barcode lattice composed of DX tiles assembled on a long scaffold strand; the system propagates 1-dimensional (1D) information encoded on the scaffold strand into a specific and reprogrammable barcode pattern which is visible in 2D by atomic force microscopy. We have succeeded in demonstrating the first highly parallel computation via DNA tile self-assembly by using a single-layer superstructure made of DX tiles which computes the entire lookup table of pairwise XOR calculations up to a modest size input string length. We have prototyped a 2-state DNA lattice assembly containing actuator components and demonstrated its ability to be controllably switched between the two states. We are currently working on a molecular robotics experiment aimed at demonstrating unidirectional motion of a small DNA fragment along a track constructed of DNA. We have demonstrated a diverse set of novel structures and applications which extend the inherent information carrying capacity of DNA in a variety of novel directions.

References

  • D. Liu, S- H. Park, J. H. Reif, and T.H. LaBean (2004) DNA nanotubes self-assembled from TX tiles as templates for conductive nanowires. Proc. Nat. Acad. Sci., USA 101, 717-722.
  • H. Li, S- H. Park, J. H. Reif, T. H. LaBean, and Hao Yan, (2004) DNA Templated Self-Assembly of Protein and Nanoparticle Linear Arrays, J. Am. Chem. Soc. 126, 418-419.
  • H. Yan, S.H. Park, G. Finkelstein, J.H. Reif, and T.H. LaBean (2003) DNA-Templated Self-Assembly of Protein Arrays and Highly Conductive Nanowires. Science 301, 1882-1884.
  • Yan, H., LaBean, T.H., Feng, L., and Reif, J.H. (2003) Directed nucleation assembly of DNA tile complexes for barcode-patterned lattices, Proc. Nat. Acad. Sci., USA 100, 8103-8108.
  • Yan, H., Feng, L., LaBean, T.H., and Reif, J.H. (2003) Parallel Molecular Computation of Pair-wise XOR Using DNA "String Tile" Self-Assembly, J. Am. Chem. Soc., 125, 14246-14247.

Abstract in Microsoft Word® format 21,790 bytes


*Corresponding Address:
Thomas H. LaBean
Department of Computer Science, Duke University
Box 90129, Durham, NC 27708 USA
Phone: (919)660-1565 Fax: (919)660-6519
Email: thomas.labean@duke.edu
Web: http://www.cs.duke.edu/~thl



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