Construction of geometric structure by oritatami system

Yo Sub Han, Hwee Kim

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Citations (Scopus)

Abstract

Self-assembly is the process where smaller components autonomously assemble to form a larger and more complex structure. One of the application areas of self-assembly is engineering and production of complicated nanostructures. Recently, researchers proposed a new folding model called the oritatami model (OM) that simulates the cotranscriptional self-assembly, based on the kinetics on the final shape of folded molecules. Nanostructures in oritatami system (OS) are represented by a sequence of beads and interactions on the lattice. We propose a method to design a general OS, which we call GEOS, that constructs a given geometric structure. The main idea is to design small modular OSs, which we call hinges, for every possible pair of adjacent points in the target structure. Once a shape filling curve for the target structure is ready, we construct an appropriate primary structure that follows the curve by a sequence of hinges. We establish generalized guidelines on designing a GEOS, and propose two GEOSs.

Original languageEnglish
Title of host publicationDNA Computing and Molecular Programming - 24th International Conference, DNA 24, 2018, Proceedings
EditorsDavid Doty, Hendrik Dietz
PublisherSpringer Verlag
Pages173-188
Number of pages16
ISBN (Print)9783030000295
DOIs
Publication statusPublished - 2018 Jan 1
Event24th International Conference on DNA Computing and Molecular Programming, DNA 2018 - Jinan, China
Duration: 2018 Oct 82018 Oct 12

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume11145 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other24th International Conference on DNA Computing and Molecular Programming, DNA 2018
CountryChina
CityJinan
Period18/10/818/10/12

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All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Cite this

Han, Y. S., & Kim, H. (2018). Construction of geometric structure by oritatami system. In D. Doty, & H. Dietz (Eds.), DNA Computing and Molecular Programming - 24th International Conference, DNA 24, 2018, Proceedings (pp. 173-188). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11145 LNCS). Springer Verlag. https://doi.org/10.1007/978-3-030-00030-1_11