The stochastic organization of genomes and the doctrine of energy-information evolution based on bio-antenna arrays

The principle "like begets like" in algebra-matrix genetics and code biology

The article is devoted to analysis of emergent properties of the system of binary oppositions in the genetic code ensemble. The epochal model of the double helix of DNA by Watson and Crick showed that the multiple reproduction of genetic information on DNA strands uses the ancient principle "like begets like" based on the simple complementarity in pairs of nucleobases. Each of these pairs is built on the binary opposition "purine-pyrimidine". But the system of DNA n-plet alphabets and genetic coding is much richer in types of binary oppositions, which also have some coding meanings related to this principle. The article contains the results of the application of the author's "method of hierarchy binary stochastics" (HBS-method) to the analysis of the quasi-stochastic organization of binary sequences of hydrogen bonds in genomic single-stranded DNAs. This analysis revealed hidden probability rules related to dichotomous fractal-like probability trees. The relationship between inherited bodily dichotomies in living organisms and the discovered probability dichotomies in information sequences of genomic DNAs is discussed. The encoding properties of molecular binary oppositions in the DNA nucleotide system allows the algorithmic construction of (2n∗2n)-matrices of probabilities of n-plets in these binary sequences, which are matrix representations of 2n-dimensional hyperbolic numbers. Connections of these multidimensional numbers with some inherited physiological phenomena and deep neural networks are noted. A unified algebra-numeric certification of the DNAs of genomes and genes - based on these multidimensional numerical systems - is proposed.

Binary oppositions, algebraic holography and stochastic rules in genetic informatics

The article is devoted to the author's results of the algebraic analysis of molecular genetic systems, including a set of structured DNA alphabets and long nucleotide sequences in single-stranded DNA of eukaryotic and prokaryotic genomes. A connection of the system of DNA n-plets alphabets with principles of algebraic holography is shown, which concerns a popular theme of holography principles in genetically inherited physiology. In addition, a relation between DNA n-plets alphabets and the Poincaré disk model of Lobachevski hyperbolic geometry is revealed. This relation can explain known facts of the relationship of physiological phenomena with hyperbolic geometry. Considering long DNA sequences as a bunch of many parallel texts written in different n-plets alphabets led to the discovery of some universal rules of the stochastic organization of genomic DNAs. These rules are discussed concerning the general problem of the biological dualism "probability-vs-determinism". In general, the presented results give pieces of evidence in favor of the efficiency of a model approach to living organisms as quantum-informational algebraic-harmonic essences.