Identification of exonic regions in dna sequences an approach using cross-correlation and noise suppression by discrete cosine transform

Aratã Andrade Saraiva,Felipe Castro,José Vigno Moura Sousa,Marcos Soares De Oliveira

doi:10.33448/rsd-v9i9.8173

Aratã Andrade Saraiva, Felipe Castro + Show 2 more

Open Access

https://doi.org/10.33448/rsd-v9i9.8173

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Abstract

To identify the exonic regions in the DNA sequence of Chromosome 23, filtering techniques are used. DCT is a technique with the ability to remove noise from signals as shown in [Saraiva et al., 2018], in addition, noise suppression with DCT is not enough in itself, so in this work a new method of identifying exonic regions using cross correlation with DCT together with an FFT-based bandpass filter to decrease signal noise and find exonic regions.

Highlights

The identification of protein coding regions in DNA sequences using signal processing techniques is an important component of bioinformatics and biological signal processing, this work presents a new identification method, in this case the cross correlation and the correlation coefficient was used to confirm the feasibility of the technique used
In order to understand the structure and evolution of eukaryotic genomes, it is important to know the general statistical characteristics of the exons and introns, the identification of the exonic regions assist in the process of analyzing the eukaryotic genome sequence (Avery et al, 1944; Morgan, 1911)
To apply the technique to the DNA sequence in order to find nucleotide a region exhibiting a denoised signal, the DNA sequence is first mapped onto the numerical sequence, the DNA sequence is organized as shown in the Figure 2

Summary

Introduction

The identification of protein coding regions (exons) in DNA sequences using signal processing techniques is an important component of bioinformatics and biological signal processing, this work presents a new identification method, in this case the cross correlation and the correlation coefficient was used to confirm the feasibility of the technique used. In order to understand the structure and evolution of eukaryotic genomes, it is important to know the general statistical characteristics of the exons and introns, the identification of the exonic regions assist in the process of analyzing the eukaryotic genome sequence (Avery et al, 1944; Morgan, 1911). When the DNA sequence of a new eukaryotic organism is synthesized, the exonic (protein coding) regions must be distinguished from the introns. Nicorici and Astola sectioned the DNA grouping into coding and non-coding areas utilizing recursive entropic division and stopcodon measurements (Datta and Asif, 2005)

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