On properties of bond-free DNA languages

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Abstract

The input data for DNA computing must be encoded into the form of single or double DNA strands. As complementary parts of single strands can bind together forming a double-stranded DNA sequence, one has to impose restrictions on these sets of DNA words (languages) to prevent them from interacting in undesirable ways. We recall a list of known properties of DNA languages which are free of certain types of undesirable bonds. Then we introduce a general framework in which we can characterize each of these properties by a solution of a uniform formal language inequation. This characterization allows us among others to construct (i) a uniform algorithm deciding in polynomial time whether a given DNA language possesses any of the studied properties, and (ii) in many cases also an algorithm deciding whether a given DNA language is maximal with respect to the desired property. © 2005 Elsevier B.V. All rights reserved.

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Kari, L., Konstantinidis, S., & Sosík, P. (2005). On properties of bond-free DNA languages. Theoretical Computer Science, 334(1–3), 131–159. https://doi.org/10.1016/j.tcs.2004.12.032

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