New insight into the pathogenesis of retinopathy of prematurity: Assessment of whole-genome expression

Pediatric Research

Volumn 73, Issue 4, 2013, Pages 476-483

  Pietrzyk, Jacek J ^a   Kwinta, Przemko ^a   Bik Multanowski, Mirosław ^a   Madetko Talowska, Anna ^a   Jagła, Mateusz ^a   Tomasik, Tomasz ^a   Mitkowska, Zofia ^a   Wollen, Embjørg J ^b   Nygård, Ståle ^b   Saugstad, Ola D ^b  

^a JAGIELLONIAN UNIVERSITY   (Poland)

^b UNIVERSITY OF OSLO   (Norway)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

ARTICLE; BLOOD SAMPLING; CLINICAL EVALUATION; COMPARATIVE STUDY; CONTROLLED STUDY; DOWN REGULATION; FEMALE; GENE EXPRESSION; GENE OVEREXPRESSION; GESTATIONAL AGE; HUMAN; HUMAN CELL; HUMAN TISSUE; INFANT; INFLAMMATION; MAJOR CLINICAL STUDY; MALE; MONONUCLEAR CELL; NUCLEOTIDE SEQUENCE; PERIPHERAL BLOOD MONONUCLEAR CELL; PRIORITY JOURNAL; PROSPECTIVE STUDY; RETROLENTAL FIBROPLASIA; RNA EXTRACTION;

ANALYSIS OF VARIANCE; CASE-CONTROL STUDIES; CHI-SQUARE DISTRIBUTION; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENETIC MARKERS; GENETIC PREDISPOSITION TO DISEASE; GENOME-WIDE ASSOCIATION STUDY; GESTATIONAL AGE; HUMANS; INFANT, EXTREMELY PREMATURE; INFANT, NEWBORN; INFANT, PREMATURE; INFLAMMATION; INTENSIVE CARE UNITS, NEONATAL; LINEAR MODELS; MALE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PHENOTYPE; PRINCIPAL COMPONENT ANALYSIS; PROSPECTIVE STUDIES; REAL-TIME POLYMERASE CHAIN REACTION; REPRODUCIBILITY OF RESULTS; RETINOPATHY OF PREMATURITY; RISK FACTORS; RNA, MESSENGER; SEVERITY OF ILLNESS INDEX;

EID: 84875636129     PISSN: 00313998     EISSN: 15300447     Source Type: Journal    
DOI: 10.1038/pr.2012.195     Document Type: Article

References (28)

1. Haines L, Fielder AR, Baker H, Wilkinson AR. UK population based study of severe retinopathy of prematurity: screening, treatment, and outcome. Arch Dis Child Fetal Neonatal Ed 2005;90:F240-4. (Pubitemid 40593454)
2. Kaiser RS, Trese MT, Williams GA, Cox MS Jr. Adult retinopathy of prematurity: outcomes of rhegmatogenous retinal detachments and retinal tears. Ophthalmology 2001;108:1647-53. (Pubitemid 32808342)
3. Holmstrom G, Broberger U, Thomassen P. Neonatal risk factors for retinopathy of prematurity-A population-based study. Acta Ophthalmol Scand 1998;76:204-7. (Pubitemid 28177211)
4. Karna P, Muttineni J, Angell L, Karmaus W. Retinopathy of prematurity and risk factors: a prospective cohort study. BMC Pediatr 2005;5:18.
5. Palmer EA. Implications of the natural course of retinopathy of prematurity. Pediatrics 2003;111(4 Pt 1):885-6. (Pubitemid 36402917)
6. Wheatley CM, Dickinson JL, Mackey DA, Craig JE, Sale MM. Retinopathy of prematurity: recent advances in our understanding. Arch Dis Child Fetal Neonatal Ed 2002;87:F78-82.
7. Schaffer DB, Palmer EA, Plotsky DF, et al. Prognostic factors in the natural course of retinopathy of prematurity. The Cryotherapy for Retinopathy of Prematurity Cooperative Group. Ophthalmology 1993;100:230-7. (Pubitemid 23056537)
8. Hutchinson AK, O'Neil JW, Morgan EN, Cervenak MA, Saunders RA. Retinopathy of prematurity in infants with birth weights greater than 1250 grams. J AAPOS 2003;7:190-4. (Pubitemid 36962711)
9. Shastry BS. Genetic susceptibility to advanced retinopathy of prematurity (ROP). J Biomed Sci 2010;17:69.
10. Bizzarro MJ, Hussain N, Jonsson B, et al. Genetic susceptibility to retinopathy of prematurity. Pediatrics 2006;118:1858-63. (Pubitemid 46393666)
11. Clevers H. Wnt/beta-catenin signaling in development and disease. Cell 2006;127:469-80.
12. Chen J, Stahl A, Hellstrom A, Smith LE. Current update on retinopathy of prematurity: screening and treatment. Curr Opin Pediatr 2011;23:173-8.
13. Morita M, Ohneda O, Yamashita T, et al. HLF/HIF-2alpha is a key factor in retinopathy of prematurity in association with erythropoietin. EMBO J 2003;22:1134-46. (Pubitemid 36313597)
14. Brafman A, Mett I, Shafir M, et al. Inhibition of oxygen-induced retinopathy in RTP801-deficient mice. Invest Ophthalmol Vis Sci 2004;45:3796-805. (Pubitemid 39298599)
15. Zhao S, Overbeek PA. Elevated TGFbeta signaling inhibits ocular vascular development. Dev Biol 2001;237:45-53. (Pubitemid 32844304)
16. Cabay L, Willermain F, Bruyns C, et al. CXCR4 expression in vitreoretinal membranes. Br J Ophthalmol 2003;87:567-9. (Pubitemid 36535326)
17. Abu El-Asrar AM, Struyf S, Kangave D, Geboes K, Van Damme J. Chemokines in proliferative diabetic retinopathy and proliferative vitreoretinopathy. Eur Cytokine Netw 2006;17:155-65.
18. GeneChip Whole Transcript (WT) sense Target Labeling Assay Manual, Version 4. Affymetrix, Santa Clara CA, USA, 2008. (http://media.affymetrix. com/support/downloads/manuals/euk-ds-transcript-protocol-703048-manual.pdf). Accessed 12 February 2013.
19. An International Committee for the Classification of Retinopathy of Prematurity. The International Classification of Retinopathy of Prematurity Revisited. Arch Ophthalmol 2005;123: 991-9.
20. Good WV, Hardy RJ, Dobson Vet al. Revised indications for the treatment of retinopathy of prematurity - Results of the early treatment for retinopathy of prematurity randomized trial. Arch Ophthalmol 2003;121:1684-96. (Pubitemid 37517433)
21. Lee M-T.Power and sample size considerations. In: Anonymous Analysis of Microarray Expression Data. Boston, MA: Kluwer Academic, 2004:191-236.
22. Bengtsson H, Wirapati P, Speed TP. A single-Array preprocessing method for estimating full-resolution raw copy numbers from all Affymetrix genotyping arrays including GenomeWideSNP 5 & 6. Bioinformatics 2009;25:2149-56.
23. Irizarry RA, Hobbs B, Collin F, et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 2003;4:249-64.
24. Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004;3:Article3.
25. Smyth GK. Limma: Linear models for microarray data. In: Gentelman R, Carey V, Dudoit S, Irizarry R, Huber W, eds. Bioinformatics and Computational Biology Solutions using R and Bioconductor. New York: Springer, 2005: 397-420.
26. Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B 1995;57:289-300.
27. Hollander M, Wolfe DA. Kendall and Spearman Tests. In: Anonymous Nonparametric Statistical Methods. New York: Wiley, 1973:185-94.
28. Huang da W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 2009;4:44-57.