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Uncovering metabolic pathways relevant to phenotypic traits of microbial genomes 英文参考文献.doc

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Uncovering metabolic pathways relevant to phenotypic traits of microbial genomes 英文参考文献

Open Access M d 2009KastenmülleretVoal.lumeetho10, Issue 3, Article R28 Uncovering metabolic pathways relevant to phenotypic traits of microbial genomes Gabi Kastenmüller*, Maria Elisabeth Schenk*, Johann Gasteiger?? and Hans-Werner Mewes*§ Addresses: *Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München - German Research Center for Environmental Health, Ingolst?dter Landstra?e, D-85764 Neuherberg, Germany. ?Computer-Chemie-Centrum, Universit?t Erlangen-Nürnberg, N?gelsbachstra?e, D-91052 Erlangen, Germany. ?Molecular Networks GmbH, Henkestra?e 91, D-91052 Erlangen, Germany. §Chair for Genome-oriented Bioinformatics, Technische Universit?t München, Life and Food Science Center Weihenstephan, Am Forum 1, D-85354 Freising-Weihenstephan, Germany. Correspondence: Gabi Kastenmüller. Email: g.kastenmueller@helmholtz-muenchen.de Published: 10 March 2009 Received: 25 August 2008 Revised: 12 February 2009 Accepted: 10 March 2009 Genome Biology 2009, 10:R28 (doi:10.1186/gb-2009-10-3-r28) The electronic version of this article is the complete one and can be found online at /2009/10/3/R28 ? 2009 Kastenmüller et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. MicrobialmpultAipnleewmmetabolicmicraocbhiianlegleepathwaysnarning-basedomes./p method is presented here for the identification of metabolic pathways related to specific phenotypes in Abstract Identifying the biochemical basis of microbial phenotypes is a main objective of comparative genomics. Here we present a novel method using multivariate machine learning techniques for comparing automatically derived metabolic reconstructions of sequenced genomes on a large scale. Applying our method to 266 genomes directly led to testable h