application of nonnegative matrix factorization to improve profile-profile alignment features for fold recognition and remote homolog detection非负矩阵分解的应用改善褶皱profile-profile对齐特征识别和远程同族体检测.pdfVIP
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application of nonnegative matrix factorization to improve profile-profile alignment features for fold recognition and remote homolog detection非负矩阵分解的应用改善褶皱profile-profile对齐特征识别和远程同族体检测
BMC Bioinformatics BioMed Central
Research article Open Access
Application of nonnegative matrix factorization to improve
profile-profile alignment features for fold recognition and remote
homolog detection
1 1 1 1,2
Inkyung Jung , Jaehyung Lee , Soo-Young Lee and Dongsup Kim*
Address: 1Department of Bio and Brain Engineering, KAIST, Daejeon, 305-701, South Korea and 2KAIST Institute for the BioCentury, KAIST,
Daejeon, 305-701, South Korea
Email: Inkyung Jung - snowdrop83@; Jaehyung Lee - jaehyung.lee@kaist.ac.kr; Soo-Young Lee - sylee@kaist.ac.kr;
Dongsup Kim* - kds@kaist.ac.kr
* Corresponding author
Published: 1 July 2008 Received: 8 January 2008
Accepted: 1 July 2008
BMC Bioinformatics 2008, 9:298 doi:10.1186/1471-2105-9-298
This article is available from: /1471-2105/9/298
© 2008 Jung et al; licensee BioMed Central Ltd.
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0),
which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Abstract
Background: Nonnegative matrix factorization (NMF) is a feature extraction method that has the
property of intuitive part-based representation of the original features. This unique ability makes
NMF a potentially promising method for biological sequence analysis. Here, we apply NMF to fold
recognition and remote homolog d
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