A kernel-based case retrieval algorithm with application to bioinformatics

	A kernel-based case retrieval algorithm with application to bioinformatics
	Fu, Y; Yang, Q; Ling, CX; Wang, HP; Li, DQ; Sun, RX; Zhou, H; Zeng, R; Chen, YQ; He, SM
刊名	PRICAI 2004: TRENDS IN ARTIFICIAL INTELLIGENCE, PROCEEDINGS
	2004
卷号	3157 期号:1 页码:544-553
通讯作者	Fu, Y (reprint author), Chinese Acad Sci, Inst Comp Technol, Beijing 100080, Peoples R China.,yfu@ict.ac.cn ; qyang@cs.ust.hk ; cling@csd.uwo.ca ; hpwang@ict.ac.cn ; dqli@ict.ac.cn ; rxsun@gscas.ac.cn ; hzhou@sibs.ac.cn ; zr@sibs.ac.cn ; yqchen@ict.ac.cn ; smhe@ict.ac.cn ; wgao@ict.ac.cn
英文摘要	Case retrieval in case-based reasoning relies heavily on the design of a good similarity function. This paper provides an approach to utilizing the correlative information among features to compute the similarity of cases for case retrieval. This is achieved by extending the dot product-based linear similarity measures to their nonlinear versions with kernel functions. An application to the peptide retrieval problem in bioinformatics shows the effectiveness of the approach. In this problem, the objective is to retrieve the corresponding peptide to the input tandem mass spectrum from a large database of known peptides. By a kernel function implicitly mapping the tandem mass spectrum to a high dimensional space, the correlative information among fragment ions in a tandem mass spectrum can be modeled to dramatically reduce the stochastic mismatches. The experiment on the real spectra dataset shows a significant reduction of 10% in the error rate as compared to a common linear similarity function.
学科主题	Computer Science
类目[WOS]	Computer Science, Artificial Intelligence
关键词[WOS]	MASS-SPECTRAL DATA ; PROTEIN IDENTIFICATION ; DATABASE ; PEPTIDES
收录类别	SCI
语种	英语
WOS记录号	WOS:000223633300058
内容类型	期刊论文
版本	出版稿
源URL	[http://202.127.25.143/handle/331003/2212]
专题	上海生化细胞研究所_上海生科院生化细胞研究所
推荐引用方式 GB/T 7714	Fu, Y,Yang, Q,Ling, CX,et al. A kernel-based case retrieval algorithm with application to bioinformatics[J]. PRICAI 2004: TRENDS IN ARTIFICIAL INTELLIGENCE, PROCEEDINGS,2004,3157(1):544-553.
APA	Fu, Y.,Yang, Q.,Ling, CX.,Wang, HP.,Li, DQ.,...&Gao, W.(2004).A kernel-based case retrieval algorithm with application to bioinformatics.PRICAI 2004: TRENDS IN ARTIFICIAL INTELLIGENCE, PROCEEDINGS,3157(1),544-553.
MLA	Fu, Y,et al."A kernel-based case retrieval algorithm with application to bioinformatics".PRICAI 2004: TRENDS IN ARTIFICIAL INTELLIGENCE, PROCEEDINGS 3157.1(2004):544-553.