| Literature DB >> 20479259 |
Baiyu Zhou1, Weihong Xu, David Herndon, Ronald Tompkins, Ronald Davis, Wenzhong Xiao, Wing Hung Wong, Mehmet Toner, H Shaw Warren, David A Schoenfeld, Laurence Rahme, Grace P McDonald-Smith, Douglas Hayden, Philip Mason, Shawn Fagan, Yong-Ming Yu, J Perren Cobb, Daniel G Remick, John A Mannick, James A Lederer, Richard L Gamelli, Geoffrey M Silver, Michael A West, Michael B Shapiro, Richard Smith, David G Camp, Weijun Qian, John Storey, Michael Mindrinos, Rob Tibshirani, Stephen Lowry, Steven Calvano, Irshad Chaudry, Michael A West, Mitchell Cohen, Ernest E Moore, Jeffrey Johnson, Lyle L Moldawer, Henry V Baker, Philip A Efron, Ulysses G J Balis, Timothy R Billiar, Juan B Ochoa, Jason L Sperry, Carol L Miller-Graziano, Asit K De, Paul E Bankey, Celeste C Finnerty, Marc G Jeschke, Joseph P Minei, Brett D Arnoldo, John L Hunt, Jureta Horton, J Perren Cobb, Bernard Brownstein, Bradley Freeman, Ronald V Maier, Avery B Nathens, Joseph Cuschieri, Nicole Gibran, Matthew Klein, Grant O'Keefe.
Abstract
Time-course microarray experiments are capable of capturing dynamic gene expression profiles. It is important to study how these dynamic profiles depend on the multiple factors that characterize the experimental condition under which the time course is observed. Analytic methods are needed to simultaneously handle the time course and factorial structure in the data. We developed a method to evaluate factor effects by pooling information across the time course while accounting for multiple testing and nonnormality of the microarray data. The method effectively extracts gene-specific response features and models their dependency on the experimental factors. Both longitudinal and cross-sectional time-course data can be handled by our approach. The method was used to analyze the impact of age on the temporal gene response to burn injury in a large-scale clinical study. Our analysis reveals that 21% of the genes responsive to burn are age-specific, among which expressions of mitochondria and immunoglobulin genes are differentially perturbed in pediatric and adult patients by burn injury. These new findings in the body's response to burn injury between children and adults support further investigations of therapeutic options targeting specific age groups. The methodology proposed here has been implemented in R package "TANOVA" and submitted to the Comprehensive R Archive Network at http://www.r-project.org/. It is also available for download at http://gluegrant1.stanford.edu/TANOVA/.Entities:
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Year: 2010 PMID： 20479259 PMCID： PMC2890487 DOI： 10.1073/pnas.1002757107
Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205