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Design of DNA origami

Rothemund, Paul. W. K. (2005) Design of DNA origami. In: ICCAD 2005 -- International Conference on Computer Aided Design, San Jose, CA, 6-10 November 2005. IEEE , Piscataway, NJ, pp. 470-477. ISBN 0-7803-9254-X http://resolver.caltech.edu/CaltechAUTHORS:ROTiccad05

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Abstract

The generation of arbitrary patterns and shapes at very small scales is at the heart of our effort to miniaturize circuits and is fundamental to the development of nanotechnology. Here I review a recently developed method for folding long single strands of DNA into arbitrary two-dimensional shapes using a raster fill technique - 'scaffolded DNA origami'. Shapes up to 100 nanometers in diameter can be approximated with a resolution of 6 nanometers and decorated with patterns of roughly 200 binary pixels at the same resolution. Experimentally verified by the creation of a dozen shapes and patterns, the method is easy, high yield, and lends itself well to automated design and manufacture. So far, CAD tools for scaffolded DNA origami are simple, require hand-design of the folding path, and are restricted to two dimensional designs. If the method gains wide acceptance, better CAD tools will be required.


Item Type:Book Section
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http://dx.doi.org/10.1109/ICCAD.2005.1560114 DOIArticle
http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=1560114PublisherArticle
Additional Information:© 2005 IEEE. Reprinted with permission. Posted online: 2005-12-19. I thank E. Winfree who provided a stimulating lab environment for this work and taught me much about DNA structure. I thank N. Papadakis for his encouragement and discussions on DNA structure. This work was influenced greatly by B. Yurke’s work demonstrating the utility of strand invasion for DNA nanomachines; the term ‘nanobreadboard’ is his invention. In this work I was supported by fellowships from the Beckman Foundation and Caltech Center for the Physics of Information.
Funders:
Funding AgencyGrant Number
Beckman Foundation UNSPECIFIED
Caltech Center for the Physics of InformationUNSPECIFIED
Subject Keywords:DNA, biomolecular electronics, integrated circuit design, integrated circuit manufacture, nanopatterning
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INSPEC Accession Number8834345
Record Number:CaltechAUTHORS:ROTiccad05
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:ROTiccad05
Alternative URL:http://dx.doi.org/10.1109/ICCAD.2005.1560114
Official Citation:Rothemund, P.W.K.; , "Design of DNA origami," Computer-Aided Design, 2005. ICCAD-2005. IEEE/ACM International Conference on , vol., no., pp. 471- 478, 6-10 Nov. 2005 doi: 10.1109/ICCAD.2005.1560114 URL: http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=1560114&isnumber=33130
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:8913
Collection:CaltechAUTHORS
Deposited By: Archive Administrator
Deposited On:26 Sep 2007
Last Modified:21 Aug 2014 02:11

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