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Multi-Label Learning With Fuzzy Hypergraph Regularization for Protein Subcellular Location Prediction
Jing Chen1,2; Yuan Yan Tang1,2; C. L. Philip Chen1; Bin Fang3; Yuewei Lin2; Zhaowei Shang3
2014-12-01
Source PublicationIEEE Transactions on Nanobioscience
ISSN1536-1241
Volume13Issue:4Pages:438-447
Abstract

Protein subcellular location prediction aims to predict the location where a protein resides within a cell using computational methods. Considering the main limitations of the existing methods, we propose a hierarchical multi-label learning model FHML for both single-location proteins and multi-location proteins. The latent concepts are extracted through feature space decomposition and label space decomposition under the nonnegative data factorization framework. The extracted latent concepts are used as the codebook to indirectly connect the protein features to their annotations. We construct dual fuzzy hypergraphs to capture the intrinsic high-order relations embedded in not only feature space, but also label space. Finally, the subcellular location annotation information is propagated from the labeled proteins to the unlabeled proteins by performing dual fuzzy hypergraph Laplacian regularization. The experimental results on the six protein benchmark datasets demonstrate the superiority of our proposed method by comparing it with the state-of-the-art methods, and illustrate the benefit of exploiting both feature correlations and label correlations.

KeywordDictionary Learning Hypergraph Regularization Multi-label Learning Protein Subcellular Localization
DOIhttps://doi.org/10.1109/TNB.2014.2341111
URLView the original
Indexed BySCI
Language英语
WOS Research AreaBiochemistry & Molecular Biology ; Science & Technology - Other Topics
WOS SubjectBiochemical Research Methods ; Nanoscience & Nanotechnology
WOS IDWOS:000345906200010
PublisherIEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC, 445 HOES LANE, PISCATAWAY, NJ 08855-4141 USA
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Citation statistics
Cited Times [WOS]:7   [WOS Record]     [Related Records in WOS]
Document TypeJournal article
CollectionDEPARTMENT OF COMPUTER AND INFORMATION SCIENCE
Corresponding AuthorJing Chen; Yuan Yan Tang; C. L. Philip Chen; Bin Fang; Yuewei Lin; Zhaowei Shang
Affiliation1.Faculty of Science and Technology, University of Macau, Taipa, Macau
2.Chongqing University, Chongqing 400030, China
3.college of Computer Science, Chongqing University, Chongqing 400030, China
4.University of South Carolina, Columbia, SC 29208 USA
First Author AffilicationFaculty of Science and Technology
Corresponding Author AffilicationFaculty of Science and Technology
Recommended Citation
GB/T 7714
Jing Chen,Yuan Yan Tang,C. L. Philip Chen,et al. Multi-Label Learning With Fuzzy Hypergraph Regularization for Protein Subcellular Location Prediction[J]. IEEE Transactions on Nanobioscience,2014,13(4):438-447.
APA Jing Chen,Yuan Yan Tang,C. L. Philip Chen,Bin Fang,Yuewei Lin,&Zhaowei Shang.(2014).Multi-Label Learning With Fuzzy Hypergraph Regularization for Protein Subcellular Location Prediction.IEEE Transactions on Nanobioscience,13(4),438-447.
MLA Jing Chen,et al."Multi-Label Learning With Fuzzy Hypergraph Regularization for Protein Subcellular Location Prediction".IEEE Transactions on Nanobioscience 13.4(2014):438-447.
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