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A Novel Method for Protein Structure Retrieval Using Tableau Representation and Sparse Coding
Yang Lu; Lina Yang; Haoliang Yuan; Yulong Wang; Huiwu Luo; Yuan Yan Tang
2014
Conference Name2014 IEEE International Conference on Systems, Man, and Cybernetics (SMC)
Source PublicationConference Proceedings - IEEE International Conference on Systems, Man and Cybernetics
Volume2014-January
IssueJanuary
Pages4042-4046
Conference Date5-8 Oct. 2014
Conference PlaceSan Diego, CA
CountryUSA
PublisherIEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA
Abstract

Protein retrieval is a difficult task and has become a hot issue recently due to the complex structure and large data size of proteins. This work helps biologists investigate the link between structure and function of a protein in a deeper level and can be used in lots of biomedical applications. The retrieval system gives scores to all proteins in the database, e.g. SCOP or PDB, by given a query protein to compare with them. In this paper, we propose a novel algorithm based on sparse coding to retrieve proteins in the database using tableau representation. Both unsupervised and supervised methods are studied in the proposed algorithm where the sparse coefficient is regarded as similarity measurement. Experiments are conducted on ASTRAL 1.73 95% database and show that the proposed algorithms can improve the original feature extraction method which only uses cosine similarity.

DOIhttps://doi.org/10.1109/SMC.2014.6974565
URLView the original
Indexed BySCI
Language英语
WOS Research AreaComputer Science
WOS SubjectComputer Science, Artificial Intelligence ; Computer Science, Cybernetics ; Computer Science, Information Systems
WOS IDWOS:000370963704030
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Cited Times [WOS]:0   [WOS Record]     [Related Records in WOS]
Document TypeConference paper
CollectionDEPARTMENT OF COMPUTER AND INFORMATION SCIENCE
AffiliationDepartment of Computer and Information Science University of Macau Macau, China
First Author AffilicationUniversity of Macau
Recommended Citation
GB/T 7714
Yang Lu,Lina Yang,Haoliang Yuan,et al. A Novel Method for Protein Structure Retrieval Using Tableau Representation and Sparse Coding[C]:IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA,2014:4042-4046.
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