[PDF][PDF] A new operation on words suggested by DNA biochemistry: Hairpin completion

D Cheptea, C Martın-Vide, V Mitrana - ii Transgressive Computing, 2006 - orcca.on.ca
In this paper we propose a new formal operation on words and languages suggested by
DNA manipulation, called hairpin completion. By this operation, based on a Watson-Crick …

[HTML][HTML] On some algorithmic problems regarding the hairpin completion

F Manea, C Martín-Vide, V Mitrana - Discrete Applied Mathematics, 2009 - Elsevier
We consider a few algorithmic problems regarding the hairpin completion. The first problem
we consider is the membership problem of the hairpin and iterated hairpin completion of a …

Two complementary operations inspired by the DNA hairpin formation: Completion and reduction

F Manea, V Mitrana, T Yokomori - Theoretical Computer Science, 2009 - Elsevier
We consider two complementary operations: Hairpin completion introduced in [D. Cheptea,
C. Martin-Vide, V. Mitrana, A new operation on words suggested by DNA biochemistry …

Self-assembly of strings and languages

E Csuhaj-Varjú, I Petre, G Vaszil - Theoretical Computer Science, 2007 - Elsevier
Self-assembly is the process in which simple objects autonomously aggregate into large
structures and it has become one of the major tools for nano-scale engineering. We propose …

Hairpin completion versus hairpin reduction

F Manea, V Mitrana - Computation and Logic in the Real World: Third …, 2007 - Springer
We define the hairpin reduction as the inverse operation of a formal operation on words and
languages suggested by DNA biochemistry, namely the hairpin completion, introduced in …

DNA word set design based on minimum free energy

Q Zhang, B Wang, X Wei, X Fang… - Ieee Transactions on …, 2010 - ieeexplore.ieee.org
The problem of data and information encoding on DNA bears an increasing interest for both
biological and nonbiological applications of biomolecular computing. Recent experimental …

On the overlap assembly of strings and languages

SK Enaganti, OH Ibarra, L Kari, S Kopecki - Natural Computing, 2017 - Springer
This paper investigates properties of the binary string and language operation overlap
assembly which was defined by Csuhaj-Varjú, Petre and Vaszil as a formal model of the …

Bounded hairpin completion

M Ito, P Leupold, F Manea, V Mitrana - Information and Computation, 2011 - Elsevier
Hairpin completion is a formal operation inspired from biochemistry. Here we consider a
restricted variant of hairpin completion called bounded hairpin completion. Applied to a word …

Hairpin lengthening

F Manea, C Martín-Vide, V Mitrana - Conference on Computability in …, 2010 - Springer
The hairpin completion is a natural operation of formal languages which has been inspired
by molecular phenomena in biology and by DNA-computing. We consider here a new …

A formal language model of DNA polymerase enzymatic activity

SK Enaganti, L Kari, S Kopecki - Fundamenta Informaticae, 2015 - content.iospress.com
We propose and investigate a formal language operation inspired by the naturally occurring
phenomenon of DNA primer extension by a DNA-template-directed DNA Polymerase …