About: A new method to cluster DNA sequences using Fourier power spectrum

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	A new method to cluster DNA sequences using Fourier power spectrum
Creator	Yin, Changchuan Yu, Chenglong Zheng, Hui He, Rong Yau, S.-T Hoang, Tung
source	Elsevier; Medline; PMC
abstract	Abstract A novel clustering method is proposed to classify genes and genomes. For a given DNA sequence, a binary indicator sequence of each nucleotide is constructed, and Discrete Fourier Transform is applied on these four sequences to attain respective power spectra. Mathematical moments are built from these spectra, and multidimensional vectors of real numbers are constructed from these moments. Cluster analysis is then performed in order to determine the evolutionary relationship between DNA sequences. The novelty of this method is that sequences with different lengths can be compared easily via the use of power spectra and moments. Experimental results on various datasets show that the proposed method provides an efficient tool to classify genes and genomes. It not only gives comparable results but also is remarkably faster than other multiple sequence alignment and alignment-free methods.
has issue date	2015-05-07(xsd:dateTime)
bibo:doi	10.1016/j.jtbi.2015.02.026
bibo:pmid	25747773
has license	els-covid
sha1sum (hex)	53cee6ab40cabc83c6a1d71faf668e95d823c33f
schema:url	https://doi.org/10.1016/j.jtbi.2015.02.026
resource representing a document's title	A new method to cluster DNA sequences using Fourier power spectrum
has PubMed Central identifier	PMC7094126
has PubMed identifier	25747773
schema:publication	Journal of Theoretical Biology
resource representing a document's body	covid:53cee6ab40cabc83c6a1d71faf668e95d823c33f#body_text
is schema:about of	covid:arg/53cee6ab40cabc83c6a1d71faf668e95d823c33f named entity 'PHYLOGENETIC ANALYSIS' named entity 'CLUSTER' named entity 'GENES' named entity 'FOURIER' named entity 'GENOMES' named entity 'USE' named entity 'FOURIER' named entity 'USING' named entity 'NEW' named entity 'METHOD' named entity 'CLUSTER' named entity 'POWER SPECTRUM' named entity 'BASED' named entity 'DNA SEQUENCES' named entity 'MATHEMATICAL' named entity 'POWER SPECTRUM' named entity 'PERFORM' named entity 'CONSTRUCT' named entity 'power spectrum' named entity 'mathematical moments' named entity 'power spectrum' named entity 'adenine' named entity 'nucleotides' named entity 'gene' named entity 'common cold' named entity 'k-mer' named entity 'DFT' named entity 'thymine' named entity 'adenine' named entity 'Burkholderiaceae' named entity 'Spirochaetaceae' named entity 'HCoV-229E' named entity 'genome sequence' named entity 'genome sequences' named entity 'Coronaviridae' named entity 'power spectrum' named entity 'Sokal' named entity 'k-mer' named entity 'power spectrum' named entity 'k-mer' named entity 'phylogenetic trees' named entity 'adenine' named entity 'thymine' named entity 'Power Spectrum' named entity 'Desulfovibrionaceae' named entity 'genetically distinct' named entity 'adenine' named entity 'Artiodactyla' named entity 'biological sequences' named entity 'k-mer' named entity 'MAFFT' named entity 'coding regions' named entity 'H7N3' named entity 'random noise' named entity 'DFT' named entity 'guanine' named entity 'phylogeny' named entity 'Kotlar' named entity 'Enterobacteriaceae' named entity 'phylogenetic analysis' named entity 'mutation rate' named entity 'k-mer' named entity 'H1N1' named entity 'time domain' named entity 'gene' named entity 'biological sequences' named entity 'fast Fourier transform' named entity 'cytosine' named entity 'k-mer' named entity 'UPGMA method' named entity 'mammalian genome' named entity 'nucleotide' named entity 'adenine' named entity 'adenine' named entity 'hierarchical clustering'

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