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Observing metabolic functions at the genome scale

Jean-Marc Schwartz*†, Claire Gaugain†, Jose C Nacher, Antoine de Daruvar and Minoru Kanehisa

Genome Biology 2007, 8:R123 doi:10.1186/gb-2007-8-6-r123

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Methodology article   Open Access Highly Accessed

Gene set analyses for interpreting microarray experiments on prokaryotic organisms

Nathan L Tintle, Aaron A Best, Matthew DeJongh, Dirk Van Bruggen, Fred Heffron, Steffen Porwollik, Ronald C Taylor BMC Bioinformatics 2008, 9:469 (5 November 2008)

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Research article   Open Access Highly Accessed

'Systems toxicology' approach identifies coordinated metabolic responses to copper in a terrestrial non-model invertebrate, the earthworm Lumbricus rubellus

Jacob G Bundy, Jasmin K Sidhu, Faisal Rana, David J Spurgeon, Claus Svendsen, Jodie F Wren, Stephen R Stürzenbaum, A John Morgan, Peter Kille BMC Biology 2008, 6:25 (3 June 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | Editor’s summary

The toxic effects of chemical contaminants like copper on a key indicator organism, the earthworm, can be monitored by combining metabolomics and transcriptomics, a systems ecotoxicology approach that provides detailed molecular information about adaptation to soil pollutants.

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