Related papers: Evolution of the genetic code. Emergence of stop c…
Many modified genetic codes are found in specific genomes in which one or more codons have been reassigned to a different amino acid from that in the canonical code. We present a model that unifies four possible mechanisms for reassignment,…
The systematics of indices of physico-chemical properties of codons and amino acids across the genetic code are examined. Using a simple numerical labelling scheme for nucleic acid bases, data can be fitted as low-order polynomials of the 6…
The selection pressures that have shaped the evolution of complex traits in humans remain largely unknown, and in some contexts highly contentious, perhaps above all where they concern mean trait differences among groups. To date, the…
In this paper, we construct new families of convolutional codes. Such codes are obtained by means of algebraic geometry codes. Additionally, more families of convolutional codes are constructed by means of puncturing, extending, expanding…
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…
Geometric evolution represents a fundamental aspect of many physical phenomena. In this paper we consider the geometric evolution of structures that undergo topological changes. Topological changes occur when the shape of an object evolves…
The Y-chromosome degeneration is still an intriguing mechanism and comprises the very origin of sex. We present a coupled version of the well known logistic map and the logistic equation describing the evolution of XY chromosomes. Although…
Part 1 of the study intends to show that the universal trend of amino acid gain and loss discovered by Jordan et al. (2005) can be accounted for by the spontaneity of DNA typical damages. These damages lead to replacements of guanine and…
Genetic sequences are known to possess non-trivial composition together with symmetries in the frequencies of their components. Recently, it has been shown that symmetry and structure are hierarchically intertwined in DNA, suggesting a…
A code to evolve boson stars in 3D is presented as the starting point for the evolution of scalar field systems with arbitrary symmetries. It was possible to reproduce the known results related to perturbations discovered with 1D numerical…
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…
{\bf Background}: Several features are known to correlate with the GC-content in the human genome, including recombination rate, gene density and distance to telomere. However, by testing for pairwise correlation only, it is impossible to…
The enzyme Glyceraldehyde-3-Phosphate Dehydrogenase (GAPDH) catalyses the decomposition of glucose. The gene that produces the GAPDH is therefore present in a wide class of organisms. We show that for this gene the average value of the…
This paper attempts to connects the evolution of computer languages with the evolution of life, where the later has been dictated by \emph{theory of evolution of species}, and tries to give supportive evidence that the new languages are…
In this work it is shown that 20 canonical amino acids (AAs) within genetic code appear to be a whole system with strict AAs positions; more exactly, with AAs ordinal number in three variants; first variant 00-19, second 00-21 and third…
Systems biology approaches combining theoretical modeling with experiments have been singularly successful in uncovering novel features of cellular phenomena. One such feature is that of binary gene expression in which the expression level…
Alternative splicing allows an organism to make different proteins in different cells at different times, all from the same gene. In a cell that uses alternative splicing, the total length of all the exons is much shorter than in a cell…
We provide a general formulation for the code-based test compression problem with fixed-length input blocks and propose a solution approach based on Evolutionary Algorithms. In contrast to existing code-based methods, we allow unspecified…
To classify is to put things in meaningful groups, but the criteria for doing so can be problematic. Study of evolution of classification includes ontogenetic analysis of change in classification over time. We present an empirical analysis…
The present article analyses the impact on cosmology, in particular on the evolution of cosmological perturbations, of the existence of extra-dimensions. The model considered here is that of a five-dimensional Anti-de Sitter spacetime where…