Independent Sets of DNA Oligonucleotides for Nanotechnology Applications

Author

Yu, Weixia ; Lee, Ju Seok ; Johnson, Cole ; Kim, Jin-woo ; Deaton, Russell

Author_Institution

Dept. of Comput. Sci. & Comput. Eng., Univ. of Arkansas, Fayetteville, AR, USA

Volume

9

Issue

1

fYear

2010

fDate

3/1/2010 12:00:00 AM

Firstpage

38

Lastpage

43

Abstract

Independent sets of DNA oligonucleotides, which only bind with their Watson-Crick complements, have potential use in self-assembly of nanostructures, since they minimize errors and inefficiency from unwanted binding. A software tool implemented a thermodynamic model for DNA duplex formation and was used to generate large independent sets of DNA oligonucleotides. The principle of the approach was experimentally verified on a sample set of oligonucleotides.

Keywords

DNA; molecular biophysics; molecular configurations; nanobiotechnology; nanostructured materials; self-assembly; thermodynamics; DNA duplex formation; DNA oligonucleotides; Watson-Crick complements; nanostructures; nanotechnology applications; self-assembly; software tool; thermodynamic model; DNA; dynamic programming; message passing; nanotechnology; Algorithms; Computational Biology; Computer Simulation; DNA; Electrophoresis, Polyacrylamide Gel; Models, Genetic; Nanotechnology; Nucleic Acid Hybridization; Oligonucleotides; Reproducibility of Results; Software; Thermodynamics;

fLanguage

English

Journal_Title

NanoBioscience, IEEE Transactions on

Publisher

ieee

ISSN

1536-1241

Type

jour

DOI

10.1109/TNB.2009.2035446

Filename

5325721