Many Microbe Microarrays Database: Uniformly normalized affymetrix compendia with structured experimental metadata

被引：188

作者：

Faith, Jeremiah J. ^{[1
]}

Driscoll, Michael E. ^{[1
]}

Fusaro, Vincent A. ^{[1
]}

Cosgrove, Elissa J. ^{[2
]}

Hayete, Boris ^{[1
]}

Juhn, Frank S. ^{[2
]}

Schneider, Stephen J. ^{[2
]}

Gardner, Timothy S. ^{[1
,2
]}

机构：

[1] Boston Univ, Program Bioinformat, Boston, MA 02215 USA

[2] Boston Univ, Dept Biomed Engn, Boston, MA 02215 USA

来源：

NUCLEIC ACIDS RESEARCH | 2008年 / 36卷

关键词：

D O I：

10.1093/nar/gkm815

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Many Microbe Microarrays Database (M-3D) is designed to facilitate the analysis and visualization of expression data in compendia compiled from multiple laboratories. M-3D contains over a thousand Affymetrix microarrays for Escherichia coli, Saccharomyces cerevisiae and Shewanella oneidensis. The expression data is uniformly normalized to make the data generated by different laboratories and researchers more comparable. To facilitate computational analyses, M-3D provides raw data (CEL file) and normalized data downloads of each compendium. In addition, web-based construction, visualization and download of custom datasets are provided to facilitate efficient interrogation of the compendium for more focused analyses. The experimental condition metadata in M-3D is human curated with each chemical and growth attribute stored as a structured and computable set of experimental features with consistent naming conventions and units. All versions of the normalized compendia constructed for each species are maintained and accessible in perpetuity to facilitate the future interpretation and comparison of results published on M-3D data. M-3D is accessible at http://m3d.bu.edu/.

引用

页码：D866 / D870

页数：5