Sticker systems over monoids

Molecular computing has gained many interests among researchers since Head introduced the first theoretical model for DNA based computation using the splicing operation in 1987. Another model for DNA computing was proposed by using the sticker operation which Adlemanused in his successful experiment for the computation of Hamiltonian paths in a graph: a double stranded DNA sequence is composed by prolonging to the left and to the right a sequence of (single or double) symbols by using given single stranded strings or even more complex dominoes with sticky ends, gluing these ends together with the sticky ends of the current sequence according to a complementarity relation. According to this sticker operation, a language generative mechanism, called a sticker system, can be defined: a set of (incomplete) double-stranded sequences (axioms) and a set of pairs of single or double-stranded complementary sequences are given. The initial sequences are prolonged to the left and to the right by using sequences from the latter set, respectively. The iterations of these prolongations produce “computations” of possibly arbitrary length. These processes stop when a complete double stranded sequence is obtained. Sticker systems will generate only regular languages without restrictions. Additional restrictions can be imposed on the matching pairs of strands to obtain more powerful languages. Several types of sticker systems are shown to have the same power as regular grammars; one type is found to represent all linear languages whereas another one is proved to be able to represent any recursively enumerable language. The main aim of this research is to introduce and study sticker systems over monoids in which with each sticker operation, an element of a monoid is associated and a complete double stranded sequence is considered to be valid if the computation of the associated elements of the monoid produces the neutral element. Moreover, the sticker system over monoids is defined in this study

Splicing systems over permutation groups of length two

The first theoretical model of DNA computing, called a splicing system, for the study of the generative power of deoxyribonucleic acid (DNA) in the presence of restriction enzymes and ligases was introduced by Head in 1987. Splicing systems model the recombinant behavior of double-stranded DNA (dsDNA) and the enzymes which perform operation of cutting and pasting on dsDNA. Splicing systems with finite sets of axioms and rules generate only regular languages when no additional control is assumed. With several restrictions to splicing rules, the generative power increase up to recursively enumerable languages. Algebraic structures can also be used in order to control the splicing systems. In the literature, splicing systems with additive and multiplicative valences have been investigated, and it has been shown that the family of languages generated by valence splicing systems is strictly included in the family of context-sensitive languages. This motivates the study of splicing systems over permutation groups. In this paper, we define splicing systems over permutation groups and investigate the generative power of the languages produced