Identification of exonic regions in dna sequences an approach using cross-correlation and noise suppression by discrete cosine transform

Authors

DOI:

https://doi.org/10.33448/rsd-v9i9.8173

Keywords:

DNA; Exonic region; Signal processing

Abstract

To identify the exonic regions in the DNA sequence of Chromosome 23, filtering techniques are used. DCT is a technique with the ability to remove noise from signals as shown in [Saraiva et al., 2018], in addition, noise suppression with DCT is not enough in itself, so in this work a new method of identifying exonic regions using cross correlation with DCT together with an FFT-based bandpass filter to decrease signal noise and find exonic regions.

References

Akhtar, M., Epps, J., & Ambikairajah, E. (2008). Signal processingin sequence analysis: advances in eukaryotic gene prediction.IEEE journal of selectedtopics in signal processing, 2(3),310–321.

A.Swarnkar, Kumar, R., Kumar, A., & Khanna, P. (2017). Per-formance of different threshold function for ecg compression using slantlet transform. insignal processing and integrated networks (spin). 37, 375–379.

Avery, O. T., MacLeod, C. M., & McCarty, M. (1944). Studies on thechemical nature of the substance inducing transformation of pneumococcal types: induc-tion of transformation by a desoxyribonucleic acid fraction isolated from pneumococcustype iii.Journal of experimental medicine, 79(2), 137–158.

Bernaola-Galv ́an, P., Grosse, I., Carpena, P., Oliver, J. L.,Rom ́an-Rold ́an, R., & Stanley, H. E. (2000). Finding borders between coding andnoncoding dna regions by an entropic segmentation method.Physical Review Letters, 85(6):1342.

Datta, S. & Asif, A. (2005). A fast dft based gene predictionalgorithm for identification of protein coding regions. InProceedings. (ICASSP’05). IEEEInternational Conference on Acoustics, Speech, and Signal Processing, 2005., 5,653. IEEE.

Fickett, J. W. (1982). Recognition of protein coding regions in dna sequences.Nucleic acids research, 10(17), 5303–5318.

Hershey, A. D., & Chase, M. (1952). Independent functionsof viral protein and nucleic acid in growth of bacteriophage. The Journal of generalphysiology, 36(1),39–56.

Morgan, T. H. (1911). Chromosomes and associative inheritance.Science, 34 (880), 636–638.

Nguyen, B., Nguyen, D., Ma, W., and Tran, D. (2017). Investigatingthe possibility of applying eeg lossy compression to eeg-based user authentication. InNeural Networks (IJCNN), 2017 International Joint Conference on, pages 79–85. IEEE.

Raj, S. and Ray, K. C. (2017). Ecg signal analysis using dct-based dostand pso optimized svm. 66, 470–478.

Saraiva, A. A., Castro, F. M. J., Sousa, J. V. M., Valente, A., & Fonseca, F. (2018). Comparative study between the walsh hadamard transform anddiscrete cosine transform. In7th International Conference on Advanced Technologies.

Shetty, N. K. (2018). Inheritance of chromosomes, sex determination, and the human genome: A new paradigm.Gender and the Genome, 2(1):16–26.

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Published

11/09/2020

How to Cite

SARAIVA, A. A. .; CASTRO, F.; OLIVEIRA, M. S. de .; SOUSA, J. V. M. . Identification of exonic regions in dna sequences an approach using cross-correlation and noise suppression by discrete cosine transform. Research, Society and Development, [S. l.], v. 9, n. 9, p. e883998173, 2020. DOI: 10.33448/rsd-v9i9.8173. Disponível em: https://rsdjournal.org/index.php/rsd/article/view/8173. Acesso em: 22 nov. 2024.

Issue

Section

Exact and Earth Sciences