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Protein fold recognition using an overlapping segmentation approach and a mixture of feature extraction models

Dehzangi, A. and Paliwal, K.K. and Sharma, Alokanand and Lyons, J. and Sattar, A. (2013) Protein fold recognition using an overlapping segmentation approach and a mixture of feature extraction models. In: Lecture Notes in Bioinformatics. Lecture Notes in Computer Science, 8272 . Springer International Publishing, Switzerland, pp. 32-43. ISBN Print 9783319036793 Online 9783319036809

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    Abstract

    Protein Fold Recognition (PFR) is considered as a critical step towards the protein structure prediction problem. PFR has also a profound impact on protein function determination and drug design. Despite all the enhancements achieved by using pattern recognition-based approaches in the protein fold recognition, it still remains unsolved and its prediction accuracy remains limited. In this study, we propose a new model based on the concept of mixture of physicochemical and evolutionary features. We then design and develop two novel overlapping segmented-based feature extraction methods. Our proposed methods capture more local and global discriminatory information than previously proposed approaches for this task. We investigate the impact of our novel approaches using the most promising attributes selected from a wide range of physicochemical-based attributes (117 attributes) which is also explored experimentally in this study. By using Support Vector Machine (SVM) our experimental results demonstrate a significant improvement (up to 5.7%) in the protein fold prediction accuracy compared to previously reported results found in the literature.

    Item Type: Book Chapter
    Subjects: T Technology > T Technology (General)
    Divisions: Faculty of Science, Technology and Environment (FSTE) > School of Engineering and Physics
    Depositing User: Alokanand Sharma
    Date Deposited: 17 Dec 2013 11:59
    Last Modified: 12 Jul 2016 14:04
    URI: http://repository.usp.ac.fj/id/eprint/7027
    UNSPECIFIED

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