eprintid: 8758
rev_number: 2
eprint_status: archive
userid: 1
dir: disk0/00/00/87/58
datestamp: 2023-11-09 16:20:40
lastmod: 2023-11-09 16:20:40
status_changed: 2023-11-09 16:13:27
type: article
metadata_visibility: show
creators_name: Ahmad, M.
creators_name: Jung, L.T.
creators_name: Bhuiyan, A.-A.
title: From DNA to protein: Why genetic code context of nucleotides for DNA signal processing? A review
ispublished: pub
keywords: Biomedical signal processing; Codes (symbols); DNA; Fuzzy logic; Gene encoding; Nucleotides; Proteins; Semantics, 1/F noise; 3-base periodicity; Coding region; Computational solutions; Fundamental characteristics; Non-coding region; Protein coding regions; Semantic similarity, Digital signal processing, DNA; nucleotide, codon; digital filtering; DNA sequence; Fourier transformation; genetic code; human; molecular weight; noise reduction; nonhuman; pathogenicity island; priority journal; Review; signal processing
note: cited By 32
abstract: Protein coding regions are commonly diffused with non-coding regions due to 1/f background noise in such a way that a viable discernment between the two regions becomes cumbersome. Commonly employed digital signal processing methodologies lack fundamental genetic code context of nucleotides since these approaches treat DNA signal as normal digital signal that could be processed by traditional DSP tools and techniques. This paper reviews the prevailing approaches for protein coding regions identification that base on common DSP concepts and highlights the importance of genetic code context to be considered for any computational solution for protein coding regions identification. Nucleotides in a DNA signal carry certain natural characteristics i.e. presence in a distinctive triplet format, maintaining distinct structure, owning and further sharing distribution of densities in codons, fuzzy behaviors, semantic similarities, unbalanced nucleotides� distribution producing a relatively high bias for nucleotides� usage in coding regions etc. The computational solutions for protein coding regions identification that exploit these fundamental characteristic of nucleotides can significantly suppress the signal noise and hence can better contribute in identification. © 2017 Elsevier Ltd
date: 2017
publisher: Elsevier Ltd
official_url: https://www.scopus.com/inward/record.uri?eid=2-s2.0-85009382823&doi=10.1016%2fj.bspc.2017.01.004&partnerID=40&md5=51c5c9971586722bc8bac4fd29a6547b
id_number: 10.1016/j.bspc.2017.01.004
full_text_status: none
publication: Biomedical Signal Processing and Control
volume: 34
pagerange: 44-63
refereed: TRUE
issn: 17468094
citation:   Ahmad, M. and Jung, L.T. and Bhuiyan, A.-A.  (2017) From DNA to protein: Why genetic code context of nucleotides for DNA signal processing? A review.  Biomedical Signal Processing and Control, 34.  pp. 44-63.  ISSN 17468094