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Orthologous gene-expression profiling in multi-species models: search for candidate genes

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Center for Translational Respiratory Medicine, Gene Expression Profiling Core, Division of Pulmonary and Critical Care Medicine, Johns Hopkins University School of Medicine, Hopkins Bayview Circle, Baltimore, MD 21224, USA. †Department of Biostatistics, Johns Hopkins University, Baltimore, MD 21205, USA. ‡Center for Translational Respiratory Medicine, Johns Hopkins University, Eastern Ave, Baltimore, MD 21224, USA. §The Institute for Genomic Research, Medical Center Drive, Rockville, MD 20850, USA. ¶Center for Translational Respiratory Medicine, Division of Pulmonary and Critical Care Medicine, Johns Hopkins University, East Monument Street, Baltimore, MD 21287, USA. Correspondence:. | Method Open Access Orthologous gene-expression profiling in multi-species models search for candidate genes Dmitry N Grigoryev Shwu-Fan Ma Rafael A Irizarry Shui Qing Ye John Quackenbush and Joe GN Garcia Addresses Center for Translational Respiratory Medicine Gene Expression Profiling Core Division of Pulmonary and Critical Care Medicine Johns Hopkins University School of Medicine Hopkins Bayview Circle Baltimore MD 21224 USA. Department of Biostatistics Johns Hopkins University Baltimore MD 21205 USA. Center for Translational Respiratory Medicine Johns Hopkins University Eastern Ave Baltimore MD 21224 USA. The Institute for Genomic Research Medical Center Drive Rockville MD 20850 USA. Center for Translational Respiratory Medicine Division of Pulmonary and Critical Care Medicine Johns Hopkins University East Monument Street Baltimore MD 21287 usA. Correspondence Joe GN Garcia. E-mail drgarcia@jhmi.edu Published 27 April 2004 Genome Biology 2004 5 R34 The electronic version of this article is the complete one and can be found online at http genomebiology.com 2004 5A5 R34 Received 30 November 2003 Revised 26 January 2004 Accepted 16 March 2004 2004 Grigoryev et al. licensee BioMed Central Ltd. This is an Open Access article verbatim copying and redistribution of this article are permitted in all media for any purpose provided this notice is preserved along with the article s original URL. Abstract Microarray-driven gene-expression profiles are generally produced and analyzed for a single specific experimental model. We have assessed an analytical approach that simultaneously evaluates multi-species experimental models within a particular biological condition using orthologous genes as linkers for the various Affymetrix microarray platforms on multi-species models of ventilator-associated lung injury. The results suggest that this approach may be a useful tool in the evaluation of biological processes of interest and selection of process-related candidate genes. .