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Nanoscale Molecular Transport by Synthetic DNA Machines

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Nanotechnology: Science and Computation

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References

  1. P. Alberti and J.-L. Mergny. DNA duplex-quadruplex exhange as the basis for a nanomolecular machine. Proc. Natl. Acad. Sci. USA, 100:1569–1573, 2003.

    Article  Google Scholar 

  2. A.P. Alivisatos, K.P. Johnsson, X.G. Peng, T.E. Wilson, C.J. Loweth, M.P. Bruchez, and P.G. Schultz. Organization of ‘nanocrystal molecules’ using DNA. Nature, 382(6592):609–611, 1996.

    Article  Google Scholar 

  3. J.D. Badjic, V. Balzani, A. Credi, S. Silvi, and J.F. Stoddart. A molecular elevator. Science, 303:1845–1849, 2004.

    Article  Google Scholar 

  4. S.M. Block. Kinesin: What gives? Cell, 93:5–8, 1998.

    Article  Google Scholar 

  5. R.M. Dirks and N.A. Pierce. A partition function algorithm for nucleic acid secondary structure including pseudoknots. J. Comput. Chem., 24:1664–1677, 2003.

    Article  Google Scholar 

  6. E. Harlow and D. Lane. Antibodies: A Laboratory Manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, 1988.

    Google Scholar 

  7. I.L. Hofacker, W. Fontana, P.F. Stadler, L.S. Bonhoeffer, M. Tacker, and P. Schuster. Fast folding and comparison of RNA secondary structures. Chemical Monthly, 125:167–188, 1994.

    Article  Google Scholar 

  8. K. Hofmann, S.W. Wood, C.C. Brinton, J.A. Montibeller, and F.M. Finn. Iminobiotin affinity columns and their application to retrieval of streptavidin. Proc. Natl. Acad. Sci. USA, 77(8):4666–4668, 1980.

    Article  Google Scholar 

  9. D.A. Leigh, J.K.Y. Wong, F. Dehez, and F. Zerbetto. Unidirectional rotation in a mechanically interlocked molecular rotor. Nature, 424:174–179, 2003.

    Article  Google Scholar 

  10. D. Liu, S.H. Park, J.H. Reif, and T.H. LaBean. DNA nanotubes self-assembled from triple-crossover tiles as templates for conductive nanowires. Proc. Natl. Acad. Sci. USA, 101(3):717–722, 2004.

    Article  Google Scholar 

  11. C. Mao, W. Sun, Z. Shen, and N.C. Seeman. A nanomechanical device based on the B–Z transition of DNA. Nature, 397(6715):144–146, 1999.

    Article  Google Scholar 

  12. D.L. Nelson and M.M. Cox. Leninger Principles of Biochemistry. Worth, New York, NY, 2000.

    Google Scholar 

  13. P.W.K. Rothemund, A. Ekani-Nkodo, N. Papadakis, A. Kumar, D.K. Fygenseon, and E. Winfree. Design and characterization of programmable DNA nanotubes. J. Am. Chem. Soc., 126(50):16344–16352, 2004.

    Article  Google Scholar 

  14. M. Schliwa and G. Woehlke. Molecular motors. Nature, 422:759–765, 2003.

    Article  Google Scholar 

  15. N.C. Seeman. Nucleic acid junctions and lattices. J. Theor. Biol., 99:237–247, 1982.

    Article  Google Scholar 

  16. W.B. Sherman and N.C. Seeman. A precisely controlled DNA biped walking device. Nano Lett., 4(7):1203–1207, 2004.

    Article  Google Scholar 

  17. J.-S. Shin and N.A. Pierce. Rewritable memory by controllable nanopatterning of DNA. Nano Lett., 4(5):905–909, 2004.

    Article  Google Scholar 

  18. J.-S. Shin and N.A. Pierce. A synthetic DNA walker for molecular transport. J. Am. Chem. Soc., 126:10834–10835, 2004.

    Article  Google Scholar 

  19. F.C. Simmel and B. Yurke. A DNA-based molecular device switchable between three distinct mechanical states. Appl. Phys. Lett., 80(5):883–885, 2002.

    Article  Google Scholar 

  20. M.N. Stojanovic. Personal communication, 2005.

    Google Scholar 

  21. Y. Tian, Y. He, Y. Chen, P. Yin, and C. Mao. A DNAzyme that walks processively and autonomously along a one-dimensional track. Angew. Chem. Int. Ed., 44:2–5, 2005.

    Google Scholar 

  22. A.J. Turberfield, J.C. Mitchell, B. Yurke, A.P. Mills, Jr., M.I. Blakey, and F.C. Simmel. DNA fuel for free-running nanomachines. Phys. Rev. Lett., 90(11):118102, 2003.

    Article  Google Scholar 

  23. R.D. Vale. The molecular motor toolbox for intracellular transport. Cell, 112:467–480, 2003.

    Article  Google Scholar 

  24. E. Winfree, F. Liu, L.A. Wenzler, and N.C. Seeman. Design and self-assembly of two-dimensional DNA crystals. Nature, 394:539–544, 1998.

    Article  Google Scholar 

  25. H. Yan, X. Zhang, Z. Shen, and N.C. Seeman. A robust DNA mechanical device controlled by hybridization topology. Nature, 415(6867):62–5, 2002.

    Article  Google Scholar 

  26. A. Yildiz, M. Tomishige, R.D. Vale, and P.R. Selvin. Kinesin walks hand-overhand. Science, 303:676–678, 2004.

    Article  Google Scholar 

  27. P. Yin, H. Yan, X.G. Daniell, A. J. Turberfield, and J.H. Reif. A unidirectional DNA walker that moves autonomously along a track. Angew. Chem. Int. Ed., 43:4906–4911, 2004.

    Article  Google Scholar 

  28. B. Yurke, A.J. Turberfield, A.P. Mills, Jr., F.C. Simmel, and J.L. Neumann. A DNA-fuelled molecular machine made of DNA. Nature, 406:605–608, 2000.

    Article  Google Scholar 

  29. M. Zuker. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res., 31(13):3406–3415, 2003.

    Article  Google Scholar 

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Shin, JS., Pierce, N.A. (2006). Nanoscale Molecular Transport by Synthetic DNA Machines. In: Chen, J., Jonoska, N., Rozenberg, G. (eds) Nanotechnology: Science and Computation. Natural Computing Series. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-30296-4_11

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  • DOI: https://doi.org/10.1007/3-540-30296-4_11

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-30295-7

  • Online ISBN: 978-3-540-30296-4

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