Development of public toxicogenomics software for microarray data management and analysis

被引:74
作者
Tong, WD
Harris, S
Cao, XX
Fang, H
Shi, LM
Sun, HM
Fuscoe, J
Harris, A
Hong, HX
Xie, Q
Perkins, R
Casciano, D
机构
[1] Natl Ctr Toxicol Res, Ctr Toxicoinformat, Div Biometry & Risk Assessment, Jefferson, AR 72079 USA
[2] Northrop Grumman Informat Technol, Jefferson, AR 72079 USA
[3] US FDA, Ctr Funct Genom, Div Reprod & Genet Toxicol, NCTR, Jefferson, AR 72079 USA
[4] US FDA, Ctr Hepatotox, NCTR, Jefferson, AR 72079 USA
[5] US FDA, Off Director, NCTR, Jefferson, AR 72079 USA
关键词
toxicogenomics software; DNA microarray; database;
D O I
10.1016/j.mrfmmm.2003.12.024
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
A robust bioinformatics capability is widely acknowledged as central to realizing the promises of toxicogenomics. Successful application of toxicogenomic approaches, such as DNA microarray, inextricably relies on appropriate data management, the ability to extract knowledge from massive amounts of data and the availability of functional information for data interpretation. At the FDA's National Center for Toxicological Research (NCTR), we are developing a public microarray data management and analysis software, called ArrayTrack. ArrayTrack is Minimum Information About a Microarray Experiment (MIAME) supportive for storing both microarray data and experiment parameters associated with a toxicogenomics study. A quality control mechanism is implemented to assure the fidelity of entered expression data. ArrayTrack also provides a rich collection Of functional information about genes, proteins and pathways drawn from various public biological databases for facilitating data interpretation. In addition, several data analysis and visualization tools are available with ArrayTrack, and more tools will be available in the next released version. Importantly, gene expression data, functional information and analysis methods are fully integrated so that the data analysis and interpretation process is simplified and enhanced. ArrayTrack is publicly available online and the prospective user can also request a local installation version by contacting the authors. (C) 2004 Elsevier B.V. All rights reserved.
引用
收藏
页码:241 / 253
页数:13
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