Abstract
The inherent massive parallelism of self-assembly is one of its most appealing attributes for autonomous construction. One challenge in parallel self-assembly is to reduce the number of incompatible substructures that can occur in order to increase the yield in target structures. Early studies demonstrated how a simple approach to component design led components to self-assemble into incompatible substructures. Approaches have been proposed to reduce the number of incompatible substructures by increasing component complexity (e.g. using mechanical switches to determine substructure conformation). In this work, we show how a geometrical approach to self-assembling target structures from the inside-out eliminates incompatible substructures and increases yield. The advantages of this approach includes the simplicity of component design, and the incorporation of additional techniques to reduce component interaction errors. An experiment using millimeter-scale, 3D printed components is used to provide physical evidence to support our geometrical approach.
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References
Barish, R.D., Schulman, R., Rothemund, P.W.K., Winfree, E.: An information-bearing seed for nucleating algorithmic self-assembly. Proc. Natl. Acad. Sci. U.S.A. 106(15), 6054–6059 (2009)
Bhalla, N., Bentley, P.J., Vize, P.D., Jacob, C.: Staging the self-assembly process: Inspiration from biological development. Artificial Life 20(1), 29–53 (2014)
Bhalla, N., Ipparthi, D., Klemp, E., Dorigo, M.: A geometrical approach to the incompatible substructure problem in parallel self-assembly: supplementary material. Tech. Rep. TR/IRIDIA/2014-010, IRIDIA, Université Libre de Bruxelles, Brussels, Belgium (2014)
Dagliyan, O., Shirvanyants, D., Karginov, A.V., Dinga, F., Feea, L., Chandrasekarana, S.N., Freisingerd, C.M., Smolend, G.A., Huttenlocherd, A., Hahnc, K.M., Dokholyana, N.V.: Rational design of a ligand-controlled protein conformational switch. Proc. Natl. Acad. Sci. U.S.A. 110(17), 6800–6804 (2013)
Gautam, V.K., Haddow, P.C., Kuiper, M.: Reliable self-assembly by self-triggered activation of enveloped DNA tiles. In: Dediu, A.-H., Martín-Vide, C., Truthe, B., Vega-Rodríguez, M.A. (eds.) TPNC 2013. LNCS, vol. 8273, pp. 68–79. Springer, Heidelberg (2013)
Hettmansperger, T.P., McKean, J.W.: Robust nonparametric statistical methods. Chapman & Hall/CRC Press, Boca Rotan (2010)
Hosokawa, K., Shimoyama, I., Miura, H.: Dynamics of self-assembling systems: Analogy with chemical kinetics. Artificial Life 1(4), 413–427 (1994)
Klavins, E.: Programmable self-assembly. IEEE Control Systems Magazine 27(4), 43–56 (2007)
Mastrangeli, M., Abbasi, S., Van Hoof, C., Celis, J.P., Böhringer, K.F.: Self-assembly from milli- to nanoscales: methods and applications. Journal of Micromechanics and Microengineering 19(8), 1–37 (2009)
Mendes, A.C., Baran, E.T., Reis, R.L., Azevedo, H.S.: Self-assembly in nature: using the principles of nature to create complex nanobiomaterials. WIREs Nanomedicine and Nanobiotechnology 5(6), 582–612 (2013)
Miyashita, S., Nagy, Z., Nelson, B.J., Pfeifer, R.: The influence of shape on parallel self-assembly. Entropy 11(4), 643–666 (2009)
Pelesko, J.A.: Self Assembly: The Science of Things that Put Themselves Together. Chapman & Hall/CRC Press, Boca Rotan (2007)
Saitou, K.: Conformational switching in self-assembling mechanical systems. IEEE Transactions on Robotics and Automation 15(3), 510–520 (1999)
Schneiter, A.A., Miller, J.F.: Description of sunflower growth stages. Crop Science 21(6), 901–903 (1981)
Whitesides, G.M., Boncheva, M.: Beyond molecules: Self-assembly of mesoscopic and macroscopic components. Proc. Natl. Acad. Sci. U.S.A. 99(8), 4769–4774 (2002)
Whitesides, G.M., Grzybowski, B.: Self-assembly at all scales. Science 295(5564), 2418–2421 (2002)
Winfree, E., Liu, F., Wenzler, L.A., Seeman, N.C.: Design and self-assembly of two-dimensional DNA crystals. Nature 394, 539–544 (1998)
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Bhalla, N., Ipparthi, D., Klemp, E., Dorigo, M. (2014). A Geometrical Approach to the Incompatible Substructure Problem in Parallel Self-Assembly. In: Bartz-Beielstein, T., Branke, J., Filipič, B., Smith, J. (eds) Parallel Problem Solving from Nature – PPSN XIII. PPSN 2014. Lecture Notes in Computer Science, vol 8672. Springer, Cham. https://doi.org/10.1007/978-3-319-10762-2_74
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DOI: https://doi.org/10.1007/978-3-319-10762-2_74
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