Authors:
Rabeb Touati
;
Imen Messaoudi
;
Afef ElloumiOueslati
and
Zied Lachiri
Affiliation:
University of Tunis el Manar, National Engineering School, Tunisia
Keyword(s):
Transposable Elements (TES), Helitrons, C.elegans, SVM, Kernel-tricks, FCGS, CWT, Energy-wavelet.
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.