NDLI: New Online Hierarchical Feature Extraction Algorithm for Classification of Protein

Content Provider	IEEE Xplore Digital Library
Author	Kchouk, M. Mhamdi, F.
Copyright Year	2014
Description	Author affiliation: Nat. Super. Sch. of Eng. of Tunis (ENSIT), Univ. of Tunis, Tunis, Tunisia (Kchouk, M.; Mhamdi, F.)
Abstract	Feature extraction from biological data is a very important discipline in bioinformatics. The aim of this work is to classify protein sequences automatically. To do this, it seemed appropriate to use a data mining process: the process of Knowledge Discovery and Data mining (KDD) from biological data. We are interested in the first phase of the KDD, that consists in the preprocessing and we focus on the step: Feature extraction. Feature extraction is translated by the generation of a set of feature that is presented to a supervised learning algorithm for classification. An extraction method that we have adopted is the method of N-grams. The algorithm of n-grams consists in extracting feature of fixed size of length n. In this paper, we propose a hierarchical algorithm of construction of n-grams to obtain feature of variable sizes. This algorithm of extraction is used to meet the needs of biologists. By using the linear classifier SVM, the experiments on real protein banks show the efficiency of our algorithm while presenting a comparison of our work to previous works.
Starting Page	10
Ending Page	14
File Size	460392
Page Count	5
File Format	PDF
ISBN	9781479957217
ISSN	15294188
e-ISBN	9781479957224
DOI	10.1109/DEXA.2014.20
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2014-09-01
Publisher Place	Germany
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Feature extraction Proteins Classification algorithms Data mining Support vector machines Bioinformatics biological data Feature Extraction KDD preprocessing classification of proteins SVM
Content Type	Text
Resource Type	Article

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4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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