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Improved lower bounds for constant GC-content DNA codes

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Improved lower bounds for constant GC-content DNA codes

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Title: Improved lower bounds for constant GC-content DNA codes
Author: Chee, Yeow Meng; Ling, San
Copyright year: 2008
Abstract: The design of large libraries of oligonucleotides having constant GC-content and satisfying Hamming distance constraints between oligonucleotides and their Watson-Crick complements is important in reducing hybridization errors in DNA computing, DNA microarray technologies, and molecular bar coding. Various techniques have been studied for the construction of such oligonucleotide libraries, ranging from algorithmic constructions via stochastic local search to theoretical constructions via coding theory. A new stochastic local search method is introduced, which yields improvements for more than one third of the benchmark lower bounds of Gaborit and King (2005) for n-mer oligonucleotide libraries when n ≤14. Several optimal libraries are also found by computing maximum cliques on certain graphs.
Subject: DRNTU::Science::Mathematics::Applied mathematics
Type: Journal Article
Series/ Journal Title: IEEE transactions on information theory
School: School of Physical and Mathematical Sciences
Rights: IEEE Transactions on Information Theory © copyright IEEE. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE. This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder. http://www.ieee.org/portal/site.
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