Oligonucleotide microarray identification of Bacillus anthracis strains using support vector machines

被引：13
|
作者：
Doran, M. [1 ]
Raicu, D. S.
Furst, J. D.
Settimi, R.
Schipma, M.
Chandler, D. P.
机构：
[1] Depaul Univ, Intelligent Multimedia Proc Lab, Sch Comp Sci Telecommun & Informat Syst, Chicago, IL 60604 USA
[2] Argonne Natl Lab, Chicago, IL USA
来源：
BIOINFORMATICS | 2007年 / 23卷 / 04期
关键词：
D O I：
10.1093/bioinformatics/btl626
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
The capability of a custom microarray to discriminate between closely related DNA samples is demonstrated using a set of Bacillus anthracis strains. The microarray was developed as a universal fingerprint device consisting of 390 genome-independent 9mer probes. The genomes of B.anthracis strains are monomorphic and therefore, typically difficult to distinguish using conventional molecular biology tools or microarray data clustering techniques. Using support vector machines (SVMs) as a supervised learning technique, we show that a low-density fingerprint microarray contains enough information to discriminate between B.anthracis strains with 90% sensitivity using a reference library constructed from six replicate arrays and three replicates for new isolates. Contact: doran_michael@msn.com
引用
收藏
页码：487 / 492
页数：6
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