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Automated, Constraint-Based Analysis of Tethered DNA Nanostructures Read chapter Read first chapter

2017 | OriginalPaper | Chapter

Ruleset Optimization on Isomorphic Oritatami Systems

Authors : Yo-Sub Han, Hwee Kim

Published in: DNA Computing and Molecular Programming

Publisher: Springer International Publishing

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Abstract

RNA cotranscriptional folding refers to the phenomenon in which an RNA transcript folds upon itself while being synthesized out of a gene. The oritatami system (OS) is a computation model of this phenomenon, which lets its sequence of beads (abstract molecules) fold cotranscriptionally by the interactions between beads according to its ruleset. We study the problem of reducing the ruleset size while maintaining the terminal conformations geometrically same. We first prove the hardness of finding the smallest ruleset, and suggest two approaches that reduce the ruleset size efficiently.

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previous chapter DNA-Templated Synthesis Optimization
next chapter Unknotted Strand Routings of Triangulated Meshes
Footnotes
1
In the original paper, the seed was defined by a single term \(\sigma \).
 
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Metadata
Title
Ruleset Optimization on Isomorphic Oritatami Systems
Authors
Yo-Sub Han
Hwee Kim
Copyright Year
2017
Book
DNA Computing and Molecular Programming

Print ISBN: 978-3-319-66798-0

Electronic ISBN: 978-3-319-66799-7

Copyright Year: 2017

DOI
https://doi.org/10.1007/978-3-319-66799-7_3

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