Related papers: Harmonic mean as a determinant of the genetic code
Graham and Sloane proposed in 1980 a conjecture stating that every tree has a harmonious labelling, a graph labelling closely related to additive base. Very limited results on this conjecture are known. In this paper, we proposed a…
The values of molecular polarizabilities and softnesses of the twenty amino acids were computed ab initio (MP2). By using the iterative Hirshfeld scheme to partition the molecular electronic properties, we demonstrate that the values of the…
Recently, Chen, Hou and Jin used both Abel's lemma on summation by parts and Zeilberger's algorithm to generate recurrence relations for definite summations. Meanwhile, they proposed the Abel-Gosper method to evaluate some indefinite sums…
In certain fields where compositional data are studied, the compositional components, called parts, can be combined into certain subsets, called amalgamations, that are based on domain knowledge. Furthermore, these subsets can form a…
Much evolutionary information is stored in the fluctuations of protein length distributions. The genome size and non-coding DNA content can be calculated based only on the protein length distributions. So there is intrinsic relationship…
What are proteins made from, as the working parts of the living cells protein machines? To answer this question, we need a technology to disassemble proteins onto elementary func-tional details and to prepare lumped description of such…
Protein-fragment seqlets typically feature about 10 amino acid residue positions that are fixed to within conservative substitutions but usually separated by a number of prescribed gaps with arbitrary residue content. By quantifying a…
Herein is presented a research with regard to the calculation of quantum mean values, for a composite A+B, by using different formulas to expressions in Boltzmann-Gibbs-Shannon's statistics. It is analyzed why matrix formulas E_A y E_B, in…
An approach based on using the idea of distinguished coding phase in explicit form for identification of protein-coding regions (exons) in whole genome has been proposed. For several genomes an optimal window length for averaging GC-content…
The article presents the theoretical foundations of the algorithm for calculating the number of different genomes in the medium under study and of two algorithms for determining the presence of a particular (known) genome in this medium.…
Genetic algorithms are a well-known method for tackling the problem of variable selection. As they are non-parametric and can use a large variety of fitness functions, they are well-suited as a variable selection wrapper that can be applied…
This work gives a mathematical foundation for bifurcation from a stable equilibrium in the genome. We construct idealized dynamics associated with the genome. For this dynamics we investigate the two main bifurcations from a stable…
The nucleotide composition of human genes with a special emphasis on transcription-related strand asymmetries is analyzed. Such asymmetries may be associated with different mutational rates in two principal factors. The first one is…
The famous series of Fibonacci numbers is defined by a recursive equation saying that each number is the sum of its two predecessors, with the initial condition that the first two numbers are equal to unity. Here, we show that the numbers…
The outcome of a functional genomics pipeline is usually a partial list of genomic features, ranked by their relevance in modelling biological phenotype in terms of a classification or regression model. Due to resampling protocols or just…
The Harmonic Mean between the number of papers and the citation number per paper is proposed as a simple single-value index to quantify an individual's research output. Two simple comparisons with the Hirsch h-index are performed.
The mathematical concept of q-deformations, in particular the one of qnumbers, is used to study the genetic code(s). After considering two kinds of q-numbers, for comparison, a phenomenological classification scheme of the genetic code…
Human chromosome 21 is the only chromosome in human genome that exhibits oscillation of (G+C)-content of cycle length of hundreds kilobases (500 kb near the right telomere). We aim at establishing the existence of similar periodicity in…
A plausible architecture of an ancient genetic code is derived from an extended base triplet vector space over the Galois field of the extended base alphabet {D, G, A, U, C}, where the letter D represents one or more hypothetical bases with…
We investigate the possibility of encoding multiple solutions of a problem in a single chromosome. The best solution encoded in an individual will represent (will provide the fitness of) that individual. In order to obtain some benefits the…