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DNA for Self-Assembly

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Nanorobotics

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Abstract

Biological processes, and in particular DNA hybridization, offer the potential to form the basis for the assembly of nano-devices. DNA and RNA can be used to perform two types of functions: to assemble parts of nano-robot and to transmit information. This chapter focuses on the assembly function of DNA and its optimization. Indeed, these molecules possess computing properties based on the nucleic acid 4-letter alphabet which gives them programmable features. In order to determine the feasibility of such processes, the strength of DNA hybridization is measured and optimized using a method based on atomic force microscopy. The multidisciplinary work presented here targets the selection of DNA, the theoretical study, and the experimental validation.

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Notes

  1. 1.

    http://www.golem-project.eu/.

  2. 2.

    A force field is an ensemble of numerical parameters determined by techniques such as crystallography.

  3. 3.

    The hypothetical axis of the double helix discussed in the local approach.

  4. 4.

    Percentage of nitrogenous bases on a DNA molecule that is either guanine or cytosine.

  5. 5.

    http://www.golem-project.eu/.

  6. 6.

    The sequence of nitrogenous bases is [(CAGT)5].

  7. 7.

    These configurations correspond to 20, 16, and 12 nitrogen bases consecutively hybridized.

  8. 8.

    The sequence S 1 proposed in the European project Golem (5’-3’): CAA ATA CCG TGG GAC GAC ACG CAC CGG CAG TGC GCA GGC AGC GTC GGA CAC AAC ACG CTT ACG GCC CTC AAC ACT.

  9. 9.

    According to the manufacturer, the tip of the beam can be likened to a sphere of diameter between 20 and 60 nm.

  10. 10.

    DNA base pairing: adenine (A) forms a base pair with thymine (T), and guanine (G) forms a base pair with cytosine (C).

  11. 11.

    mfold.

  12. 12.

    Complementarity between two segments with different indices from two complementary strands.

  13. 13.

    See Table 19.3.

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Authors and Affiliations

  1. Université Pierre et Marie Curie, 4 place Jussieu, 75252, Paris cedex 05, France

    Ahlem Abbaci

  2. Université Pierre et Marie Curie - Institut des Systémes Intelligents et Robotique- Equipe projet MAP, 4 place Jussieu - Boite Courrier 173, 75252, Paris Cedex 05, France

    Stéphane Régnier

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  1. Ahlem Abbaci
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  2. Stéphane Régnier
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Correspondence to Stéphane Régnier .

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Editors and Affiliations

  1. , Dept. of Mechanical and Industrial Eng., Northeastern University, Huntington Avenue 360, Boston, 02115, USA

    Constantinos Mavroidis

  2. ENSI Bourges, Institut PRISME, 88 Boulevard Lahitolle, Bourges, 18000, France

    Antoine Ferreira

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Abbaci, A., Régnier, S. (2013). DNA for Self-Assembly. In: Mavroidis, C., Ferreira, A. (eds) Nanorobotics. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-2119-1_19

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  • DOI: https://doi.org/10.1007/978-1-4614-2119-1_19

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