Related papers: The multiplet structure of the genetic code, in on…
Convolutional codes are constructed, designed and analysed using row and/or block structures of unit algebraic schemes. Infinite series of such codes and of codes with specific properties are derived. Properties are shown algebraically and…
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…
We Propose 22 unique Solutions to the Genetic Code. An Alternative Cracking, from the Perspective of a Mathematician.
In the field of mathematics, a purely combinatorial equivalent to a simplicial complex, or more generally, a down-set, is an abstract structure known as a family of sets. This family is closed under the operation of taking subsets, meaning…
Background. Models of ancestral gene order reconstruction have progressively integrated different evolutionary patterns and processes such as unequal gene content, gene duplications, and implicitly sequence evolution via reconciled gene…
Decoding sequences that stem from multiple transmissions of a codeword over an insertion, deletion, and substitution channel is a critical component of efficient deoxyribonucleic acid (DNA) data storage systems. In this paper, we consider a…
Complex systems with tightly coadapted parts frequently appear in living systems and are difficult to account for through Darwinian evolution, that is random variation and natural selection, if the constituent parts are independently coded…
We illustrate how QCD color structure elegantly can be decomposed into orthogonal multiplet bases corresponding to irreducible representations of SU(Nc) with the aid of Wigner 3j and 6j coefficients. We also show how to calculate the…
We study the primary DNA structure of four of the most completely sequenced human chromosomes (including chromosome 19 which is the most dense in coding), using Non-extensive Statistics. We show that the exponents governing the decay of the…
Several technological applications require the translation of a protein into a nucleic acid that codes for it (``backtranslation''). The degeneracy of the genetic code makes this translation ambiguous; moreover, not every translation is…
A nucleotides sequence is identified, in the two (four) letters alphabet, by the the labels of a vector state of an irreducible representation of U_q(sl(2)) (U_q(sl(2) + sl(2))), in the limit q -> 0. A master equation for the distribution…
A bitset is a set that encodes for a binary number. Bitsets are at the basis of a beautiful theory of recombination with n-loci and here we begin from scratch and advance to include the derivation of the fundamental results about the…
We point out a somewhat mysterious appearance of $SU_c(3)$ representations, which exhibit the behaviour of three full generations of standard model particles. These representations are found in the Clifford algebra $\mathbb{C}l(6)$, arising…
A family of polynomials parameterized by the conjugacy classes of a finite Coxeter group is investigated. These polynomials, together with the character table of the group, determine the associated generic degrees. The polynomials are…
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…
This paper introduces a new family of reconstruction codes which is motivated by applications in DNA data storage and sequencing. In such applications, DNA strands are sequenced by reading some subset of their substrings. While previous…
We study the mathematical properties of a general model of cell division structured with several internal variables. We begin with a simpler and specific model with two variables, we solve the eigenvalue problem with strong or weak…
In this paper, we reveal an internal structure within Dedekind numbers, demonstrating that they can be expressed as polynomials of powers of 2. This discovery is based on innovative concepts and methods, offering a new perspective on the…
New families of unit memory as well as multi-memory convolutional codes are constructed algebraically in this paper. These convolutional codes are derived from the class of group character codes. The proposed codes have basic generator…
The genetic code is profoundly shaped by an origin in ancient RNA-mediated interactions, needing an extended development to reach the Standard Genetic Code (SGC). That development can serially use RNA specificities, a ribonucleopeptide…