NDLI: JPPRED: Prediction of Types of J-Proteins from Imbalanced Data Using an Ensemble Learning Method

Content Provider	PubMed Central
Author	Zhang, Lina Zhang, Chengjin Gao, Rui Yang, Runtao
Copyright Year	2015
Abstract	Different types of J-proteins perform distinct functions in chaperone processes and diseases development. Accurate identification of types of J-proteins will provide significant clues to reveal the mechanism of J-proteins and contribute to developing drugs for diseases. In this study, an ensemble predictor called JPPRED for J-protein prediction is proposed with hybrid features, including split amino acid composition (SAAC), pseudo amino acid composition (PseAAC), and position specific scoring matrix (PSSM). To deal with the imbalanced benchmark dataset, the synthetic minority oversampling technique (SMOTE) and undersampling technique are applied. The average sensitivity of JPPRED based on above-mentioned individual feature spaces lies in the range of 0.744–0.851, indicating the discriminative power of these features. In addition, JPPRED yields the highest average sensitivity of 0.875 using the hybrid feature spaces of SAAC, PseAAC, and PSSM. Compared to individual base classifiers, JPPRED obtains more balanced and better performance for each type of J-proteins. To evaluate the prediction performance objectively, JPPRED is compared with previous study. Encouragingly, JPPRED obtains balanced performance for each type of J-proteins, which is significantly superior to that of the existing method. It is anticipated that JPPRED can be a potential candidate for J-protein prediction.
Related Links	http://dx.doi.org/10.1155/2015/705156
Starting Page	705156
File Format	PDF
ISSN	23146133
e-ISSN	23146141
Journal	BioMed Research International
Volume Number	2015
Language	English
Publisher	Hindawi Publishing Corporation
Publisher Date	2015-01-01
Access Restriction	Open
Rights Holder	Hindawi Publishing Corporation
Subject Keyword	Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Immunology and Microbiology Medicine Biochemistry, Genetics and Molecular Biology

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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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