Classification of Helitron’s Types in the C.elegans Genome based on Features Extracted from Wavelet Transform and SVM Methods

Rabeb Touati, Imen Messaoudi, Afef ElloumiOueslati, Zied Lachiri

2018

Abstract

Helitrons, a sub-class of the Transposable elements class 2, are considered as an important DNA type. In fact, they contribute in mechanism’s evolution. Till now, these elements are not well studied using the automatic tools. In fact, the researches done in helitron's recognition are based only on biological experiments. In this paper, we propose an automatic method for characterizing helitrons by global signature and classifying the helitron’s types in C.elegans genome. For this goal, we used the Complex Morlet Wavelet Transform to generate helitron’s signatures (helitron’s scalograms presentation) and to extract the features of each category. Then, we used the SVM-classifier to classify these 10 helitron’s families. After testing different kernels and using the cross validation function, we present the best classification results given by the RBF-kernel with c=60, σ=0. 0000000015625 and OAO approach.

Paper Citation

in Harvard Style

Touati R., Messaoudi I., ElloumiOueslati A. and Lachiri Z. (2018). Classification of Helitron’s Types in the C.elegans Genome based on Features Extracted from Wavelet Transform and SVM Methods. In Proceedings of the 11th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2018) - Volume 3: BIOINFORMATICS; ISBN 978-989-758-280-6, SciTePress, pages 127-134. DOI: 10.5220/0006631001270134

in Bibtex Style

@conference{bioinformatics18,
author={Rabeb Touati and Imen Messaoudi and Afef ElloumiOueslati and Zied Lachiri},
title={Classification of Helitron’s Types in the C.elegans Genome based on Features Extracted from Wavelet Transform and SVM Methods},
booktitle={Proceedings of the 11th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2018) - Volume 3: BIOINFORMATICS},
year={2018},
pages={127-134},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0006631001270134},
isbn={978-989-758-280-6},
}

in EndNote Style

TY - CONF

JO - Proceedings of the 11th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2018) - Volume 3: BIOINFORMATICS
TI - Classification of Helitron’s Types in the C.elegans Genome based on Features Extracted from Wavelet Transform and SVM Methods
SN - 978-989-758-280-6
AU - Touati R.
AU - Messaoudi I.
AU - ElloumiOueslati A.
AU - Lachiri Z.
PY - 2018
SP - 127
EP - 134
DO - 10.5220/0006631001270134
PB - SciTePress