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Modelling amorphous computations with transcription networks.

Authors
  • Simpson, Zack Booth1
  • Tsai, Timothy L
  • Nguyen, Nam
  • Chen, Xi
  • Ellington, Andrew D
  • 1 Institute of Cellular and Molecular Biology, University of Texas at Austin, Austin, TX, USA.
Type
Published Article
Journal
Journal of The Royal Society Interface
Publisher
The Royal Society
Publication Date
Aug 06, 2009
Volume
6 Suppl 4
Identifiers
DOI: 10.1098/rsif.2009.0014.focus
PMID: 19474083
Source
Medline
License
Unknown

Abstract

The power of electronic computation is due in part to the development of modular gate structures that can be coupled to carry out sophisticated logical operations and whose performance can be readily modelled. However, the equivalences between electronic and biochemical operations are far from obvious. In order to help cross between these disciplines, we develop an analogy between complementary metal oxide semiconductor and transcriptional logic gates. We surmise that these transcriptional logic gates might prove to be useful in amorphous computations and model the abilities of immobilized gates to form patterns. Finally, to begin to implement these computations, we design unique hairpin transcriptional gates and then characterize these gates in a binary latch similar to that already demonstrated by Kim et al. (Kim, White & Winfree 2006 Mol. Syst. Biol. 2, 68 (doi:10.1038/msb4100099)). The hairpin transcriptional gates are uniquely suited to the design of a complementary NAND gate that can serve as an underlying basis of molecular computing that can output matter rather than electronic information.

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