An adaptation of the wavelet transformation process for detecting DMRs in DNA

Ricardo Olanda; Carlos Reaño; Mariano Pérez; Juan M. Orduña

doi:10.1007/978-3-031-74825-7_2

An adaptation of the wavelet transformation process for detecting DMRs in DNA

Ricardo Olanda
, Carlos Reaño
, Mariano Pérez
, Juan M. Orduña^*

^*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

The detection of differentially methylated regions (DMRs) among different DNA samples has become a key aspect of DNA analysis. In previous works, we proposed a software suite based on the wavelet transform for DNA methylation analysis. Nevertheless, one of the problems that usually faces DNA methylation analysis is the low coverage (reliability) of the DNA samples, which may produce significant noise in the detection of DMRs. In this paper, we propose an adaptation of the wavelet transformation process, in such a way that it takes into account the coverage for each DNA base. The results show that the proposed transform makes significantly more sensitive the process of DMR detection, without increasing the number of false positives.

Original language	English
Title of host publication	Management, Tourism and Smart Technologies - ICMTT 2024
Editors	Álvaro Rocha, Carlos Montenegro, Elisabeth T. Pereira, José A. M. Victor, Waldo Ibarra
Publisher	Springer Cham
Pages	13-20
Number of pages	8
Volume	1
ISBN (Electronic)	9783031748257
ISBN (Print)	9783031748240
DOIs	https://doi.org/10.1007/978-3-031-74825-7_2
Publication status	Published - 01 Jan 2025
Externally published	Yes
Event	International Conference on Management, Tourism and Technologies, ICMTT 2024 - Cusco, Peru Duration: 09 May 2024 → 11 May 2024

Publication series

Name	Lecture Notes in Networks and Systems
Volume	1190 LNNS
ISSN (Print)	2367-3370
ISSN (Electronic)	2367-3389

Conference

Conference	International Conference on Management, Tourism and Technologies, ICMTT 2024
Country/Territory	Peru
City	Cusco
Period	09/05/2024 → 11/05/2024

Bibliographical note

Publisher Copyright:
© The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Nature Switzerland AG 2024.

Keywords

DNA methylation
High performance computing
Wavelet transform

ASJC Scopus subject areas

Control and Systems Engineering
Signal Processing
Computer Networks and Communications

Access to Document

10.1007/978-3-031-74825-7_2Licence: Unspecified

Cite this

Olanda, R., Reaño, C., Pérez, M., & Orduña, J. M. (2025). An adaptation of the wavelet transformation process for detecting DMRs in DNA. In Á. Rocha, C. Montenegro, E. T. Pereira, J. A. M. Victor, & W. Ibarra (Eds.), Management, Tourism and Smart Technologies - ICMTT 2024 (Vol. 1, pp. 13-20). (Lecture Notes in Networks and Systems; Vol. 1190 LNNS). Springer Cham. https://doi.org/10.1007/978-3-031-74825-7_2

Olanda, Ricardo ; Reaño, Carlos ; Pérez, Mariano et al. / An adaptation of the wavelet transformation process for detecting DMRs in DNA. Management, Tourism and Smart Technologies - ICMTT 2024. editor / Álvaro Rocha ; Carlos Montenegro ; Elisabeth T. Pereira ; José A. M. Victor ; Waldo Ibarra. Vol. 1 Springer Cham, 2025. pp. 13-20 (Lecture Notes in Networks and Systems).

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abstract = "The detection of differentially methylated regions (DMRs) among different DNA samples has become a key aspect of DNA analysis. In previous works, we proposed a software suite based on the wavelet transform for DNA methylation analysis. Nevertheless, one of the problems that usually faces DNA methylation analysis is the low coverage (reliability) of the DNA samples, which may produce significant noise in the detection of DMRs. In this paper, we propose an adaptation of the wavelet transformation process, in such a way that it takes into account the coverage for each DNA base. The results show that the proposed transform makes significantly more sensitive the process of DMR detection, without increasing the number of false positives.",

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author = "Ricardo Olanda and Carlos Rea{\~n}o and Mariano P{\'e}rez and Ordu{\~n}a, \{Juan M.\}",

note = "Publisher Copyright: {\textcopyright} The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Nature Switzerland AG 2024.; International Conference on Management, Tourism and Technologies, ICMTT 2024 ; Conference date: 09-05-2024 Through 11-05-2024",

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Olanda, R, Reaño, C, Pérez, M & Orduña, JM 2025, An adaptation of the wavelet transformation process for detecting DMRs in DNA. in Á Rocha, C Montenegro, ET Pereira, JAM Victor & W Ibarra (eds), Management, Tourism and Smart Technologies - ICMTT 2024. vol. 1, Lecture Notes in Networks and Systems, vol. 1190 LNNS, Springer Cham, pp. 13-20, International Conference on Management, Tourism and Technologies, ICMTT 2024, Cusco, Peru, 09/05/2024. https://doi.org/10.1007/978-3-031-74825-7_2

An adaptation of the wavelet transformation process for detecting DMRs in DNA. / Olanda, Ricardo; Reaño, Carlos; Pérez, Mariano et al.
Management, Tourism and Smart Technologies - ICMTT 2024. ed. / Álvaro Rocha; Carlos Montenegro; Elisabeth T. Pereira; José A. M. Victor; Waldo Ibarra. Vol. 1 Springer Cham, 2025. p. 13-20 (Lecture Notes in Networks and Systems; Vol. 1190 LNNS).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

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AU - Olanda, Ricardo

AU - Reaño, Carlos

AU - Pérez, Mariano

AU - Orduña, Juan M.

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N2 - The detection of differentially methylated regions (DMRs) among different DNA samples has become a key aspect of DNA analysis. In previous works, we proposed a software suite based on the wavelet transform for DNA methylation analysis. Nevertheless, one of the problems that usually faces DNA methylation analysis is the low coverage (reliability) of the DNA samples, which may produce significant noise in the detection of DMRs. In this paper, we propose an adaptation of the wavelet transformation process, in such a way that it takes into account the coverage for each DNA base. The results show that the proposed transform makes significantly more sensitive the process of DMR detection, without increasing the number of false positives.

AB - The detection of differentially methylated regions (DMRs) among different DNA samples has become a key aspect of DNA analysis. In previous works, we proposed a software suite based on the wavelet transform for DNA methylation analysis. Nevertheless, one of the problems that usually faces DNA methylation analysis is the low coverage (reliability) of the DNA samples, which may produce significant noise in the detection of DMRs. In this paper, we propose an adaptation of the wavelet transformation process, in such a way that it takes into account the coverage for each DNA base. The results show that the proposed transform makes significantly more sensitive the process of DMR detection, without increasing the number of false positives.

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