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	GNBSL: A new integrative system to predict the subcellular location for Gram-negative bacteria proteins
	Guo, Jian ; Lin, Yuanlie ; Liu, Xiangjun
	2010-05-06 ; 2010-05-06 ; OCT
关键词	pairwise profile alignment position-specific frequency matrix position-specific scoring matrix PSI-BLAST subcellular localization AMINO-ACID-COMPOSITION FUNCTIONAL DOMAIN COMPOSITION SUPPORT VECTOR MACHINES STRUCTURAL CLASS PREDICTION HYBRIDIZATION SPACE PSEAA PREDICTOR SORTING SIGNALS LOCALIZATION CLASSIFIER SEQUENCE Biochemical Research Methods Biochemistry & Molecular Biology
中文摘要	This paper proposes a new integrative system (GNBSL - Gram-negative bacteria subcellular localization) for subcellular localization specifized on the Gram-negative bacteria proteins. First, the system generates a position-specific frequency matrix (PSFM) and a position-specific scoring matrix (PSSM) for each protein sequence by searching the Swiss-Prot database. Then different features are extracted by four modules from the PSFM and the PSSM. The features include whole-sequence amino acid composition, N- and C-terminus amino acid composition, dipeptide composition, and segment composition. Four probabilistic neural network (PNN) classifiers are used to classify these modules. To further improve the performance, two modules trained by support vector machine (SVM) are added in this system. One module extracts the residue-couple distribution from the amino acid sequence and the other module applies a pairwise profile alignment kernel to measure the local similarity between every two sequences. Finally, an additional SVM is used to fuse the outputs from the six modules. Test on a benchmark dataset shows that the overall success rate of GNBSL is higher than those of PSORT-B, CELLO, and PSLpred.
语种	英语 ; 英语
出版者	WILEY-V C H VERLAG GMBH ; WEINHEIM ; PO BOX 10 11 61, D-69451 WEINHEIM, GERMANY
内容类型	期刊论文
源URL	[http://hdl.handle.net/123456789/13975]
专题	清华大学
推荐引用方式 GB/T 7714	Guo, Jian,Lin, Yuanlie,Liu, Xiangjun. GNBSL: A new integrative system to predict the subcellular location for Gram-negative bacteria proteins[J],2010, 2010, OCT.
APA	Guo, Jian,Lin, Yuanlie,&Liu, Xiangjun.(2010).GNBSL: A new integrative system to predict the subcellular location for Gram-negative bacteria proteins..
MLA	Guo, Jian,et al."GNBSL: A new integrative system to predict the subcellular location for Gram-negative bacteria proteins".(2010).

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