Classification of Exon and Intron Regions on DNA Sequences with Hybrid Use of SBERT and ANFIS Approaches

Authors : Fatma Akalın, Nejat Yumuşak

Pages : 1043-1053

Doi:10.2339/politeknik.1187808

View : 234 | Download : 1052

Publication Date : 2024-07-25

Article Type : Research Paper

Abstract :DNA is the part of the genome that contains enormous amounts of information related to life. Amino acids are formed by coding three nucleotides in this genome part, and the encoded amino acids are called codes in DNA. The frequency of the triple nucleotide in the DNA sequence allows for the evaluation of protein-coding (exon) and non-protein-coding (intron) regions. Distinguishing these regions enables the analysis of vital functions related to life. This study provides the classification of exon and intron regions for BCR-ABL and MEFV genes obtained from NCBI and Ensemble datasets, respectively. Then, existing DNA sequences are clustered using pretrained models in the scope of the SBERT approach. In the clustering process, K-Means and Agglomerative Clustering approaches are used consecutively. The frequency of repetition of codes is calculated with a representative sample selected from each cluster. The matrix is created using the frequencies of 64 different codons that constitute genetic code. This matrix is given as input to the ANFIS structure. The %88.88 accuracy rate is obtained with the ANFIS approach to classify exon and intron DNA sequences. As a result of this study, a successful result was produced independently of DNA length.
Keywords : DNA sequences, exon and intron regions, K Means and Agglomerative Clustering, SBERT, ANFIS

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