title: Profiling and metaanalysis of epidermal keratinocytes responses to epidermal growth factor.
abstract: BACKGROUND
  One challenge of systems biology is the integration of new data into the preexisting, and then re-interpretation of the integrated data. Here we use readily available metaanalysis computational methods to integrate new data on the transcriptomic effects of EGF in primary human epidermal keratinocytes with preexisting transcriptomics data in keratinocytes and in EGF-treated non-epidermal cell types.
  
  
  RESULTS
  We find that EGF promotes keratinocyte proliferation, attachment and motility and, surprisingly, induces DUSPs that attenuate the EGF signal. Our metaanalysis identified overlapping effects of EGF with those of IL-1 and IFNγ, activators of keratinocyte in inflammation and wound healing. We also identified the genes and pathways suppressed by EGF but induced by agents promoting epidermal differentiation. Metaanalysis comparison with the EGF effects in other cell types identified extensive similarities between responses in keratinocytes and in other epithelial cell types, but specific differences with the EGF effects in endothelial cells, and in transformed, oncogenic epithelial cell lines.
  
  
  CONCLUSIONS
  This work defines the specific transcriptional effects of EGF on human epidermal keratinocytes. Our approach can serve as a suitable paradigm for integration of new omics data into preexisting databases and re-analysis of the integrated data sets.
authors: The R. O. Perelman Department of Dermatology, Department of Biochemistry and Molecular Pharmacology, and the NYU Cancer Institute, NYU Langone Medical Center, 10016, New York, NY, USA. Miroslav.Blumenberg@nyumc.org
authors: Miroslav
authors: M
authors: Blumenberg
mesh_terms: D017209:Apoptosis / Q000235:genetics; D002454:Cell Differentiation / Q000235:genetics*; D002465:Cell Movement / Q000235:genetics; D049109:Cell Proliferation; D004815:Epidermal Growth Factor / Q000235:genetics / Q000378:metabolism; D004817:Epidermis / Q000254:growth & development / Q000378:metabolism*; D020869:Gene Expression Profiling; D006801:Humans; D007371:Interferon-gamma / Q000378:metabolism; D007375:Interleukin-1 / Q000378:metabolism; D015603:Keratinocytes / Q000166:cytology / Q000378:metabolism; D061251:Primary Cell Culture
chemical_list: D007375:Interleukin-1; D004815:Epidermal Growth Factor; D007371:Interferon-gamma
references: Methods Mol Biol. 2010;585:193-223
references: 19908006
references: Proc Natl Acad Sci U S A. 2004 Feb 10;101(6):1461-6
references: 14747657
references: Biochem Biophys Res Commun. 1999 Nov;265(1):214-21
references: 10548517
references: BMC Genomics. 2009 Nov 20;10:545
references: 19925682
references: Free Radic Biol Med. 2010 Jan 15;48(2):196-206
references: 19874887
references: Genome Biol. 2003;4(5):P3
references: 12734009
references: Wound Repair Regen. 2008 Sep-Oct;16(5):585-601
references: 19128254
references: J Proteome Res. 2010 Oct 1;9(10):5311-24
references: 20681588
references: BMC Bioinformatics. 2010 Feb 12;11:87
references: 20152038
references: J Cell Physiol. 2012 Jun;227(6):2330-40
references: 21809346
references: Proc Natl Acad Sci U S A. 1993 Jul 15;90(14):6786-90
references: 7688128
references: Curr Opin Oncol. 2010 Nov;22(6):573-8
references: 20739887
references: Cell Commun Adhes. 2001;8(1):29-44
references: 11775027
references: J Invest Dermatol. 2001 May;116(5):633-40
references: 11348449
references: Mol Cell Biol. 2012 Apr;32(7):1237-47
references: 22290434
references: J Cell Physiol. 2008 Jan;214(1):1-13
references: 17941080
references: Biochem J. 2009 Mar 15;418(3):475-89
references: 19228121
references: J Biol Chem. 1995 May 26;270(21):12614-22
references: 7759510
references: Mol Cell. 2007 Mar 23;25(6):839-50
references: 17386261
references: Nat Genet. 2007 Apr;39(4):503-12
references: 17322878
references: J Biol Chem. 2006 Jul 21;281(29):20530-41
references: 16648634
references: Expert Opin Ther Targets. 2012 Jan;16(1):15-31
references: 22239438
references: J Dermatol Sci. 1998 Jul;17(3):167-81
references: 9697045
references: Thromb Haemost. 2009 Sep;102(3):544-54
references: 19718476
references: J Invest Dermatol. 1998 Jan;110(1):34-40
references: 9424084
references: PLoS One. 2012;7(5):e36941
references: 22649503
references: Mol Cells. 2010 May;29(5):443-8
references: 20432069
references: Cell Signal. 2005 Oct;17(10):1183-93
references: 15982853
references: FEBS J. 2010 Jan;277(2):316-26
references: 19922467
references: Bioinformatics. 2004 Feb 12;20(3):307-15
references: 14960456
references: J Biol Chem. 1998 Sep 18;273(38):24387-95
references: 9733728
references: J Exp Med. 2011 Dec 19;208(13):2657-73
references: 22162832
references: J Biol Chem. 1990 Oct 5;265(28):16886-90
references: 2170359
references: Nature. 1994 Feb 10;367(6463):568-72
references: 8107826
references: Mol Cell. 2011 Apr 8;42(1):9-22
references: 21474065
references: DNA Cell Biol. 1996 Jan;15(1):65-74
references: 8561898
references: Physiol Genomics. 2012 Apr 15;44(8):455-69
references: 22395315
references: Gene Expr. 1997;6(6):361-70
references: 9495317
references: Cytokine. 2011 Apr;54(1):6-19
references: 21257317
references: J Biol Chem. 1962 May;237:1555-62
references: 13880319
references: Cell Biosci. 2012 Jul 09;2(1):24
references: 22769588
references: Eur J Dermatol. 2000 Oct-Nov;10(7):505-10
references: 11056418
references: J Biol Chem. 2011 Mar 18;286(11):9419-28
references: 21193391
references: Mol Cell Biol. 1996 Nov;16(11):6083-95
references: 8887638
references: Trends Cell Biol. 2003 Jan;13(1):43-50
references: 12480339
references: Head Neck. 2013 Jan;35(1):86-93
references: 22495823
references: Nature. 1995 Mar 16;374(6519):283-7
references: 7533895
references: Antivir Ther. 2003 Dec;8(6):541-54
references: 14760888
references: J Cell Physiol. 2009 Aug;220(2):427-439
references: 19388012