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        Frequency spectra characterization of noncoding human genomic sequences

        O. Paredes,Rebeca Romo‑Vázquez,Israel Román‑Godínez,Hugo Vélez‑Pérez,Ricardo A. Salido‑Ruiz,J. Alejandro Morales 한국유전학회 2020 Genes & Genomics Vol.42 No.10

        Background Noncoding sequences have been demonstrated to possess regulatory functions. Its classifcation is challenging because they do not show well-defned nucleotide patterns that can correlate with their biological functions. Genomic signal processing techniques like Fourier transform have been employed to characterize coding and noncoding sequences. This transformation in a systematic whole-genome noncoding library, such as the ENCODE database, can provide evidence of a periodic behaviour in the noncoding sequences that correlates with their regulatory functions. Objective The objective of this study was to classify diferent noncoding regulatory regions through their frequency spectra. Methods We computed machine learning algorithms to classify the noncoding regulatory sequences frequency spectra. Results The sequences from diferent regulatory regions, cell lines, and chromosomes possessed distinct frequency spectra, and that machine learning classifers (such as those of the support vector machine type) could successfully discriminate among regulatory regions, thus correlating the frequency spectra with their biological functions Conclusion Our work supports the idea that there are patterns in the noncoding sequences of the genome.

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