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Visual representation of DNA sequences for exon detection using non-parametric spectral estimation techniques
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2019 (English)In: Nucleosides, Nucleotides & Nucleic Acids, ISSN 1525-7770, E-ISSN 1532-2335, Vol. 38, no 5, p. 321-337Article in journal (Refereed) Published
Abstract [en]

This paper presents a new approach for modeling of DNA sequences for the purpose of exon detection. The proposed model adopts the sum-of-sinusoids concept for the representation of DNA sequences. The objective of the modeling process is to represent the DNA sequence with few coefficients. The modeling process can be performed on the DNA signal as a whole or on a segment-by-segment basis. The created models can be used instead of the original sequences in a further spectral estimation process for exon detection. The accuracy of modeling is evaluated evaluated by using the Root Mean Square Error (RMSE) and the R-square metrics. In addition, non-parametric spectral estimation methods are used for estimating the spectral of both original and modeled DNA sequences. The results of exon detection based on original and modeled DNA sequences coincide to a great extent, which ensures the success of the proposed sum-of-sinusoids method for modeling of DNA sequences.

Place, publisher, year, edition, pages
Taylor & Francis Group, 2019. Vol. 38, no 5, p. 321-337
Keywords [en]
DNA, signal modeling, non-parametric spectral estimation
National Category
Probability Theory and Statistics Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:umu:diva-159610DOI: 10.1080/15257770.2018.1536270ISI: 000467734200001PubMedID: 30861361OAI: oai:DiVA.org:umu-159610DiVA, id: diva2:1325731
Available from: 2019-06-17 Created: 2019-06-17 Last updated: 2019-06-17Bibliographically approved

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Hassan, Emadeldeen

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Dessouky, Mohamed M.Hassan, Emadeldeen
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Department of Computing Science
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Nucleosides, Nucleotides & Nucleic Acids
Probability Theory and StatisticsBiochemistry and Molecular Biology

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  • de-DE
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  • nn-NB
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