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Detection and Characterization of Local Inverted Repeats Regularities

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Practical Applications of Computational Biology and Bioinformatics, 13th International Conference (PACBB 2019)

Part of the book series: Advances in Intelligent Systems and Computing ((AISC,volume 1005 ))

Abstract

To explore the inverted repeats regularities along the genome sequences, we propose a sliding window method to extract the concentration scores of inverted repeats periodic regularities and the total mass of possible inverted repeats pairs. We apply the method to the human genome and locate the regions with the potential for the formation of large number of hairpin/cruciform structures. The number of found windows with periodic regularities is small and the patterns of occurrence are chromosome specific.

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Acknowledgment

This work was supported by FEDER (“Programa Operacional Fatores de Competitividade” - COMPETE) and FCT (“Fundação para a Ciência e a Tecnologia”), within the projects UID/MAT/04106/2019 to CIDMA (Center for Research and Development in Mathematics and Applications) and UID/CEC/00127/2019 to IEETA (Institute of Electronics and Informatics Engineering of Aveiro).

Author information

Authors and Affiliations

  1. IEETA-Institute of Electronics and Informatics Engineering of Aveiro, Aveiro, Portugal

    Carlos A. C. Bastos, Vera Afreixo, João M. O. S. Rodrigues & Armando J. Pinho

  2. Department of Electronics, Telecommunications and Informatics, University of Aveiro, Aveiro, Portugal

    Carlos A. C. Bastos, João M. O. S. Rodrigues & Armando J. Pinho

  3. CIDMA-Center for Research and Development in Mathematics and Applications, Aveiro, Portugal

    Vera Afreixo

  4. Department of Mathematics, University of Aveiro, Aveiro, Portugal

    Vera Afreixo

Authors
  1. Carlos A. C. Bastos
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  2. Vera Afreixo
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  3. João M. O. S. Rodrigues
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  4. Armando J. Pinho
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Corresponding author

Correspondence to Carlos A. C. Bastos .

Editor information

Editors and Affiliations

  1. Edificio Politécnico, Escuela Superior de Ingeniería Informática,Campus Universitario As Lagoas , Ourense, Spain

    Florentino Fdez-Riverola

  2. Department de Informática, Universidade do Minho, Braga, Portugal

    Miguel Rocha

  3. Faculty of Bioengineering and Technology, Universiti Malaysia Kelantan, Kelantan, Malaysia

    Mohd Saberi Mohamad

  4. Department of Computer Science and Software Engineering Leader, Data Science Research Group, College of Information Technology (CIT) United Arab Emirates University (UAEU), Al Ain, United Arab Emirates

    Nazar Zaki

  5. IBSAL/BISITE Research Group, University of Salamanca, Salamanca, Salamanca, Spain

    José A. Castellanos-Garzón

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Bastos, C.A.C., Afreixo, V., Rodrigues, J.M.O.S., Pinho, A.J. (2020). Detection and Characterization of Local Inverted Repeats Regularities. In: Fdez-Riverola, F., Rocha, M., Mohamad, M., Zaki, N., Castellanos-Garzón, J. (eds) Practical Applications of Computational Biology and Bioinformatics, 13th International Conference. PACBB 2019. Advances in Intelligent Systems and Computing, vol 1005 . Springer, Cham. https://doi.org/10.1007/978-3-030-23873-5_14

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