Effects of sample timing and treatment on gene expression in early acute renal allograft rejection

Transplantation

Volumn 91, Issue 3, 2011, Pages 323-329

  Günther, Oliver P ^a   Lin, David ^a   Balshaw, Robert F ^a   Ng, Raymond T ^a   Hollander, Zsuzsanna ^a   Wilson Mcmanus, Janet ^a   McMaster, W Robert ^a   McManus, Bruce M ^a   Keown, Paul A ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

Author keywords

Acute rejection; Gene expression; Kidney transplantation; Treatment; Whole blood

Indexed keywords

BASILIXIMAB; CELL PROTEIN; FK 506 BINDING PROTEIN; FK 506 BINDING PROTEIN 1A; HLA G ANTIGEN; INTEGRIN; LIM DOMAIN KINASE 2; LIM KINASE; LYMPHOCYTE ANTIBODY; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1 J; MANNOSE BINDING LECTIN 2; METHYLPREDNISOLONE; MYCOPHENOLIC ACID; NUCLEAR FACTOR Y; NUCLEAR TRANSCRIPTION FACTOR Y GAMMA; OKT 3; PREDNISONE; PROTEIN FKSG49; PROTEIN ITGAX; PROTEIN RBMS1; RNA BINDING PROTEIN; TACROLIMUS; TRANSCRIPTION FACTOR JUNB; UNCLASSIFIED DRUG;

ACUTE GRAFT REJECTION; ADULT; APOPTOSIS; ARTICLE; BIOPSY CONFIRMED ACUTE REJECTION; CASE CONTROL STUDY; CELL CYCLE REGULATION; CELL METABOLISM; CLINICAL ARTICLE; CONTROLLED STUDY; CYTOSKELETON; DNA DAMAGE; FEMALE; GENE EXPRESSION; GENE EXPRESSION PROFILING; GRAFT RECIPIENT; HUMAN; IMMUNOSUPPRESSIVE TREATMENT; KIDNEY GRAFT REJECTION; MALE; MICROARRAY ANALYSIS; PRIORITY JOURNAL; SIGNAL TRANSDUCTION;

ADULT; AGED; APOPTOSIS; BIOPSY; CASE-CONTROL STUDIES; CELL CYCLE; DNA DAMAGE; FEMALE; GENE EXPRESSION PROFILING; GRAFT REJECTION; HUMANS; IMMUNOSUPPRESSIVE AGENTS; KIDNEY; KIDNEY TRANSPLANTATION; MALE; MIDDLE AGED; SIGNAL TRANSDUCTION; TIME FACTORS; TRANSPLANTATION, HOMOLOGOUS;

EID: 79951513579     PISSN: 00411337     EISSN: None     Source Type: Journal    
DOI: 10.1097/TP.0b013e3182029b16     Document Type: Article

References (27)

1. Hayden PS, El-Meanawy A, Schelling JR, et al. DNA expression analysis: Serial analysis of gene expression, microarrays and kidney disease. Curr Opin Nephrol Hypertens 2003; 12: 407.
2. Henger A, Schmid H, Kretzler M. Gene expression analysis of human renal biopsies: Recent developments towards molecular diagnosis of kidney disease. Curr Opin Nephrol Hypertens 2004; 13: 313.
3. Kurian S,GrigoryevY, Head S,etal. Applying genomics to organ transplantation medicine in both discovery and validation of biomarkers. Int Immunopharmacol 2007; 7: 1948.
4. Ong S-E, Mann M. Mass spectrometry-based proteomics turns quantitative. Nat Chem Biol 2005; 1: 252.
5. Bermúdez-Crespo J, López J. A better understanding of molecular mechanisms underlying human disease. Proteomics Clin Appl 2007; 1: 983.
6. Irizarry RA, Hobbs B, Collin F, et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Bio-statistics 2003; 4: 249.
7. Smyth GK, Michaud J, Scott HS. Use of within-array replicate spots for assessing differential expression in microarray experiments. Bioinfor-matics 2005; 21: 2067.
8. Gentleman RC, Carey VJ, Bates DM, et al. Bioconductor: Open software development for computational biology and bioinformatics. Genome Biol 2004; 5: R80.
9. Sarwal M, Chua MS, Kambham N, et al. Molecular heterogeneity in acute renal allograft rejection identified by DNA microarray profiling. N Engl J Med 2003; 349: 125.
10. Einecke G, Reeve J, Mengel M, et al. Expression of B cell and immuno-globulin transcripts is a feature of inflammation in late allografts. Am J Transplant 2008; 8: 1434.
11. Famulski K, Broderick G, Einecke G, et al. Transcriptome analysis reveals heterogeneity in the injury response of kidney transplants. Am J Transplant 2007; 7: 2483.
12. Mueller TF, EineckeG,Reeve J, etal. Microarray analysis ofrejection in human kidney transplants using pathogenesis-based transcript sets. Am J Transplant 2007; 7: 2712.
13. Aquino-Dias EC, JoelsonsG, daSilva DM,et al. Non-invasive diagnosis of acute rejection in kidney transplants with delayed graft function. Kidney Int 2008; 73: 877.
14. MarrerE, DieterleF. Promises of biomarkersin drug development -A reality check. Chem Biol Drug Des 2007; 69: 381.
15. Flechner SM, Kurian SM, Head SR, et al. Kidney transplant rejection and tissue injury by gene profiling of biopsies and peripheral blood lymphocytes. Am J Transplant 2004; 4: 1475.
16. Brouard S, Mansfield E, Braud C, et al. Identification of a peripheral blood transcriptional biomarker panel associated with operational renal allograft tolerance. Proc Natl Acad Sci USA 2007; 104: 15448.
17. Le-Niculescu H, Kurian SM, Yehyawi N, et al. Identifying blood bi-omarkers for mood disorders using convergent functional genomics. Mol Psychiatry 2009; 14: 156.
18. Günther OP, Balshaw RF, Scherer A, et al. Functional genomic analysis of peripheral blood during early acute renal allograft rejection. Transplantation 2009; 88: 942.
19. Freue GV, Sasaki M, Meredith A, et al. Proteomic signatures in plasma during early acute renal allograft rejection. Mol Cell Proteomics 2010; 9:1954.
20. Cornell LD, Smith RN, Colvin RB. Kidney transplantation: Mechanisms of rejection and acceptance. Annu Rev Pathol 2008; 3: 189.
21. Al-Lamki RS, Wang J, Vandenabeele P, et al. TNFR1- and TNFR2-mediated signaling pathways in human kidney are cell type-specific and differentially contribute to renal injury. FASEB J 2005; 19: 1637.
22. SethR, Yang C,Kaushal V, etal. p53-dependent caspase-2 activation in mitochondrial release of apoptosis-inducing factor and its role in renal tubular epithelial cell injury. J Biol Chem 2005; 280: 31230.
23. Matsumoto K, Nakamura T. Hepatocyte growth factor: Renotropic role and potential therapeutics for renal diseases. Kidney Int 2001; 59: 2023.
24. Li B, Hartono C, Ding R, et al. Noninvasive diagnosis of renal-allograft rejection by measurement of messenger RNA for perforin and gran-zyme B in urine. N Engl J Med 2001; 344: 947.
25. Stratta P, Canavese C, Fenoglio R, et al. Dual effect of methyl-prednsolone pulses on apoptosis of peripheral leukocytes in patients with renal diseases. Int J Immunopathol Pharmacol 2006; 19: 647.
26. Smyth GK. Limma: Linear models for microarray data. In: Gentleman R, Carey V, Dudoit S, et al., eds. Bioinformatics and computational biology solutions using R and bioconductor. New York, Springer 2005, pp 397.
27. Tusher VG, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001; 98: 5116.