原创力文档colombos access port for cross-platform bacterial expression compendia科伦坡访问端口跨平台细菌表达概略.pdfVIP
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colombos access port for cross-platform bacterial expression compendia科伦坡访问端口跨平台细菌表达概略
COLOMBOS: Access Port for Cross-Platform Bacterial
Expression Compendia
. . ´ ´
Kristof Engelen* , Qiang Fu , Pieter Meysman, Aminael Sanchez-Rodrıguez, Riet De Smet, Karen
Lemmens, Ana Carolina Fierro, Kathleen Marchal*
Department of Microbial and Molecular Systems, Katholieke Universiteit Leuven, Heverlee-Leuven, Belgium
Abstract
Background: Microarrays are the main technology for large-scale transcriptional gene expression profiling, but the large
bodies of data available in public databases are not useful due to the large heterogeneity. There are several initiatives that
attempt to bundle these data into expression compendia, but such resources for bacterial organisms are scarce and limited
to integration of experiments from the same platform or to indirect integration of per experiment analysis results.
Methodology/Principal Findings: We have constructed comprehensive organism-specific cross-platform expression
compendia for three bacterial model organisms (Escherichia coli, Bacillus subtilis, and Salmonella enterica serovar
Typhimurium) together with an access portal, dubbed COLOMBOS, that not only provides easy access to the compendia,
but also includes a suite of tools for exploring, analyzing, and visualizing the data within these compendia. It is freely
available at http://bioi.biw.kuleuven.be/colombos. The compendia are unique in directly combining expression information
from different microarray platforms and experiments, and we illustrate the potential benefits of this direct integration with a
case study: extending the known regulon of the Fur transcription factor of E. co
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