Validating the genomic signature of pediatric septic shock

Physiological Genomics

Volumn 34, Issue 1, 2008, Pages 127-134

  Cvijanovich, Natalie ^b   Shanley, Thomas P ^c   Lin, Richard ^d   Allen, Geoffrey L ^e   Thomas, Neal J ^f   Checchia, Paul ^g   Anas, Nick ^h   Freishtat, Robert J ⁱ   Monaco, Marie ^a   Odoms, Kelli ^a   Sakthivel, Bhuvaneswari ^a   Wong, Hector R ^a,j  

^a UNIVERSITY OF CINCINNATI COLLEGE OF MEDICINE   (United States)

^b CHILDREN S HOSPITAL OAKLAND   (United States)

^c UNIVERSITY OF MICHIGAN   (United States)

^d CHILDREN S HOSPITAL OF PHILADELPHIA   (United States)

^e CHILDREN S MERCY HOSPITAL   (United States)

^f PENN STATE CHILDREN S HOSPITAL   (United States)

^g ST LOUIS CHILDREN S HOSPITAL   (United States)

^h CHILDREN S HOSPITAL OF ORANGE COUNTY   (United States)

ⁱ CHILDREN'S NATIONAL MEDICAL CENTER   (United States)

^j CINCINNATI CHILDREN'S HOSPITAL MEDICAL CENTER   (United States)

more..

Author keywords

Microarray; Pediatrics; T cell function; Zinc

Indexed keywords

ZINC;

ARTICLE; BIOINFORMATICS; CHILD; CLINICAL ARTICLE; COHORT ANALYSIS; CONTROLLED STUDY; FEMALE; GENE EXPRESSION; GENE REPRESSION; GENOME ANALYSIS; HOMEOSTASIS; HUMAN; LYMPHOCYTE FUNCTION; MALE; MICROARRAY ANALYSIS; PRIORITY JOURNAL; SEPTIC SHOCK; SIGNAL TRANSDUCTION; VALIDATION PROCESS; ALGORITHM; BIOLOGICAL MODEL; BLOOD; BLOOD CELL COUNT; CASE CONTROL STUDY; DOWN REGULATION; GENE EXPRESSION PROFILING; GENETIC DATABASE; GENETICS; GENOME; GENOMICS; LEUKOCYTE; MICROBIOLOGY; PATHOLOGY; PRESCHOOL CHILD; REPRODUCIBILITY; UPREGULATION;

ALGORITHMS; BLOOD CELL COUNT; CASE-CONTROL STUDIES; CHILD, PRESCHOOL; DATABASES, GENETIC; DOWN-REGULATION; FEMALE; GENE EXPRESSION PROFILING; GENOME, HUMAN; GENOMICS; HUMANS; LEUKOCYTES; MALE; MODELS, GENETIC; REPRODUCIBILITY OF RESULTS; SHOCK, SEPTIC; SIGNAL TRANSDUCTION; UP-REGULATION;

EID: 47249122242     PISSN: 10948341     EISSN: 15312267     Source Type: Journal    
DOI: 10.1152/physiolgenomics.00025.2008     Document Type: Article

References (20)

1. Allison DB, Cui X, Page GP, Sabripour M. Microarray data analysis: from disarray to consolidation and consensus. Nat Rev Genet 7: 55-65, 2006.
2. Ayala A, Chaudry IH. Immune dysfunction in murine polymicrobial sepsis: mediators, macrophages, lymphocytes and apoptosis. Shock 6, Suppl 1: S27-S38, 1996.
3. Byvatov E, Schneider G. Support vector machine applications in bioinformatics. Appl Bioinformatics 2: 67-77, 2003.
4. Calvano SE, Xiao W, Richards DR, Felciano RM, Baker HV, Cho RJ, Chen RO, Brownstein BH, Cobb JP, Tschoeke SK, Miller-Graziano C, Moldawer LL, Mindrinos MN, Davis RW, Tompkins RG, Lowry SF. A network-based analysis of systemic inflammation in humans. Nature 437: 1032-1037, 2005.
5. Cobb JP, Mindrinos MN, Miller-Graziano C, Calvano SE, Baker HV, Xiao W, Laudanski K, Brownstein BH, Elson CM, Hayden DL, Herndon DN, Lowry SF, Maier RV, Schoenfeld DA, Moldawer LL, Davis RW, Tompkins RG, Bankey P, Billiar T, Camp D, Chaudry I, Freeman B, Gamelli R, Gibran N, Harbrecht B, Heagy W, Heimbach D, Horton J, Hunt J, Lederer J, Mannick J, McKinley B, Minei J, Moore E, Moore F, Munford R, Nathens A, O'Keefe G, Purdue G, Rahme L, Remick D, Sailors M, Shapiro M, Silver G, Smith R, Stephanopoulos G, Stormo G, Toner M, Warren S, West M, Wolfe S, Young V. Application of genome-wide expression analysis to human health and disease. Proc Natl Acad Sci USA 102: 4801-4806, 2005.
6. Dennis G Jr, Sherman BT, Hosack DA, Yang J, Gao W, Lane HC, Lempicki RA. DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol 4: P3, 2003.
7. Goldstein B, Giroir B, Randolph A. International pediatric sepsis consensus conference: definitions for sepsis and organ dysfunction in pediatrics. Pediatr Crit Care Med 6: 2-8, 2005.
8. Hotchkiss RS, Karl IE. The pathophysiology and treatment of sepsis. N Engl J Med 348: 138-150, 2003.
9. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249-264, 2003.
10. Nadon R, Shoemaker J. Statistical issues with microarrays: processing and analysis. Trends Genet 18: 265-271, 2002.
11. Pollack MM, Patel KM, Ruttimann UE. The Pediatric Risk of Mortality III-Acute Physiology Score (PRISM III-APS): a method of assessing physiologic instability for pediatric intensive care unit patients. J Pediatr 131: 575-581, 1997.
12. Rink L, Haase H. Zinc homeostasis and immunity. Trends Immunol 28: 1-4, 2007.
13. Shanley TP, Cvijanovich N, Lin R, Allen GL, Thomas NJ, Doctor A, Kalyanaraman M, Tofil NM, Penfil S, Monaco M, Odoms K, Barnes M, Sakthivel B, Aronow BJ, Wong HR. Genome-level longitudinal expression of signaling pathways and gene networks in pediatric septic shock. Mol Med 13: 495-508, 2007.
14. Shanley TP, Hallstrom C, Wong Sepsis HR. In: Pediatric Critical Care Medicine (3rd ed.), edited by Fuhrman BP and Zimmerman JJ. St. Louis, MO: Mosby, 2006, p. 1474-1493.
15. Shanley TP, Wong HR. Molecular genetics in the pediatric intensive care unit. Crit Care Clin 19: 577-594, 2003.
16. Watson RS, Carcillo JA. Scope and epidemiology of pediatric sepsis. Pediatr Crit Care Med 6: S3-5, 2005.
17. Wilkes T, Laux H, Foy CA. Microarray data quality - review of current developments. Omics 11: 1-13, 2007.
18. Wong HR. Pediatric septic shock treatment: new clues from genomic profiling. Pharmacogenomics 8: 1287-1290, 2007.
19. Wong HR, Shanley TP, Sakthivel B, Cvijanovich N, Lin R, Allen GL, Thomas NJ, Doctor A, Kalyanaraman M, Tofil NM, Penfil S, Monaco M, Tagavilla MA, Odoms K, Dunsmore K, Barnes M, Aronow BJ. Genome-level expression profiles in pediatric septic shock indicate a role for altered zinc homeostasis in poor outcome. Physiol Genomics 30: 146-155, 2007.
20. Yao Z, Ruzzo WL. A regression-based K nearest neighbor algorithm for gene function prediction from heterogeneous data. BMC Bioinformatics 7, Suppl 1: S11, 2006.