ISSN 2079-3537      

 
 
 
                                                                                                                                                                                                                                                                                                                                                                                                                                                                             

Scientific Visualization, 2020, volume 12, number 3, pages 61 - 78, DOI: 10.26583/sv.12.3.06

A multiscale model of nucleic acid imaging

Author: I.V. Stepanyan1

Institute of Machine Science named after A.A.Blagonravov of the RAS

1 ORCID: 0000-0003-3176-5279, neurocomp.pro@gmail.com

 

Abstract

The paper describes new results in the field of algebraic biology, where matrix methods are used [Petukhov, 2008, 2012, 2013; Petuhov, He, 2010] with the transition from matrix algebra to discrete geometry and computer visualization of the genetic code. The algorithms allow to display the composition of sequences of nitrogenous bases in parametric spaces of various dimensions. Examples of visualization of the nucleotide composition of genetic sequences of various species of living organisms are given. The analysis was carried out in the spaces of binary orthogonal Walsh functions taking into account the physical and chemical parameters of the nitrogen bases. The results are compared with the rules of Erwin Chargaff concerning genetic sequences in the composition of DNA molecules. The developed method makes it possible to substantiate the relationship between DNA and RNA molecules with fractal and other geometric mosaics, reveals the orderliness and symmetries of polynucleotide chains of nitrogen bases and the noise immunity of their visual representations in the orthogonal coordinate system. The proposed methods can serve to simplify the researchers' perception of long chains of nitrogenous bases through their geometrical visualization in parametric spaces of various dimensions, and also serve as an additional criterion for classifying and identifying interspecific relationships.

 

Keywords: visualization algorithms, Walsh functions, Chargaffs rules, multidimensional analysis, nucleotide composition, fractals, bioinformatics, DNA, chromosomes, symmetries.