Related papers: Crystalizing the genetic code
The present work is devoted to describe a set of rules explaining the discriminating versus non-discriminating behavior of the di-basic stages and to characterize the role of each base in determining such a behavior. Bases are analyze as…
Requiring stability of genetic code against translation errors, modelised by suitable mathematical operators in the crystal basis model of the genetic code, the main features of the organisation in multiplets of the mitochondrial and of the…
A quantitative theory on the construction and the evolution of the genetic code is proposed. Through introducing the concept of mutational deterioration (MD) and developing a theoretical formalism on MD minimization we have proved: 1, the…
Classical coding theory contains several techniques to obtain new codes from other codes, including puncturing and shortening. For quantum codes, a form of puncturing is known, but its description is based on the code space rather than its…
By starting from the four DNA bases order in the Boolean lattice, a novel Lie Algebra of the genetic code is proposed. Here, the principal partitions of the genetic code table were obtained as equivalent classes of quotient subspaces of the…
Symmetry adapted bases in quantum chemistry and bases adapted to quantum information share a common characteristics: both of them are constructed from subspaces of the representation space of the group SO(3) or its double group (i.e.,…
A three-dimensional model of the genetic vocabulary is proposed in terms of determinative degree, an introduced characteristic of nucleotide, which reflects absolute difference between purin and pyrimidin bases in one DNA strand. In the…
Suppose that we have a semisimple, connected, simply connected algebraic group $G$ with corresponding Lie algebra $\mathfrak{g}$. There is a Hopf pairing between the universal enveloping algebra $U(\mathfrak{g})$ and the coordinate ring…
We predict the existence of a totally new class of phases in weakly coupled, three-dimensional stacks of two-dimensional (2D) XY-models. These ``sliding phases'' behave essentially like decoupled, independent 2D XY-models with precisely…
A quaternionic representation of the genetic code, previously reported by the authors, is updated in order to incorporate chirality of nucleotide bases and amino acids. The original representation assigns to each nucleotide base a prime…
Evolutionary crystal structure prediction proved to be a powerful approach for studying a wide range of materials. Here, we present a specifically designed algorithm for the prediction of the structure of complex crystals consisting of…
Replication of DNA and synthesis of proteins are studied from the view-point of quantum database search. Identification of a base-pairing with a quantum query gives a natural (and first ever) explanation of why living organisms have 4…
We introduce quantum pin codes: a class of quantum CSS codes. Quantum pin codes are a generalization of quantum color codes and Reed-Muller codes and share a lot of their structure and properties. Pin codes have gauge operators, an…
The present paper is devoted to foundations of p-adic modelling in genomics. Considering nucleotides, codons, DNA and RNA sequences, amino acids, and proteins as information systems, we have formulated the corresponding p-adic formalisms…
The performance of computational methods for many-body physics and chemistry is strongly dependent on the choice of basis used to cast the problem; hence, the search for better bases and similarity transformations is important for progress…
In this paper, we develop the crystal basis theory for the quantum queer superalgebra $\Uq$. We define the notion of crystal bases, describe the tensor product rule, and present the existence and uniqueness of crystal bases for…
The genetic code is the function from the set of codons to the set of amino acids by which a DNA sequence encodes proteins. Since the codons also influence the shape of the DNA molecule itself, the same sequence that encodes a protein also…
A generalization of the results of Rasetti and Zanardi concerning avoiding errors in quantum computers by using states preserved by evolution is presented. The concept of the dynamical symmetry is generalized from the level of classical Lie…
Various physical properties such as dipole moment, heat of formation and energy of the most stable formation of nucleotides and bases were calculated by PM3 (modified neglect of diatomic overlap, parametric method number 3) and AM1 (Austin…
This paper is dealing with DNA cyclic codes which play an important role in DNA computing and have attracted a particular attention in the literature. Firstly, we introduce a new family of DNA cyclic codes over the ring…