Many Microbe Microarrays Database: Uniformly Normalized Affymetrix Compendia with Structured Experimental Metadata


Show simple item record Faith, Jeremiah J. en_US Driscoll, Michael E. en_US Fusaro, Vincent A. en_US Cosgrove, Elissa J. en_US Hayete, Boris en_US Juhn, Frank S. en_US Schneider, Stephen J. en_US Gardner, Timothy S. en_US 2012-01-11T00:40:02Z 2012-01-11T00:40:02Z 2008-1 en_US
dc.identifier.citation Faith, Jeremiah J., Michael E. Driscoll, Vincent A. Fusaro, Elissa J. Cosgrove, Boris Hayete, Frank S. Juhn, Stephen J. Schneider, Timothy S. Gardner. "Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata" Nucleic Acids Research 36(Database issue): D866-D870. (2008) en_US
dc.identifier.issn 1362-4962 en_US
dc.description.abstract Many Microbe Microarrays Database (M3D) is designed to facilitate the analysis and visualization of expression data in compendia compiled from multiple laboratories. M3D 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, M3D 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 M3D 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 M3D data. M3D is accessible at en_US
dc.description.sponsorship Office of Science (BER); U.S. Department of Energy (DEFG02-04ER63803, DE-FG02-07ER64388); The National Institute of General Medical Science (R01 GM078987); Joint National Science Foundation/National Institute of General Medical Sciences Mathematical Biology Program en_US
dc.language.iso en en_US
dc.publisher Oxford University Press en_US
dc.title Many Microbe Microarrays Database: Uniformly Normalized Affymetrix Compendia with Structured Experimental Metadata en_US
dc.type article en_US
dc.identifier.doi 10.1093/nar/gkm815 en_US
dc.identifier.pubmedid 17932051 en_US
dc.identifier.pmcid 2238822 en_US

Files in this item

This item appears in the following Collection(s)

Show simple item record

Search OpenBU


Deposit Materials