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SKINOMICS: Transcriptional Profiling in Dermatology and Skin Biology

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Encyclopedia of Metagenomics
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Synonyms

Omics studies of skin and its constituents; Psoriasis data analysis; Use of large-scale data acquisition and analysis of skin

Definition

“Omics” refers to bioinformatics studies of all constituents of a biological system considered collectively, e.g., all genes of an organism – genomics, all microorganisms in a habitat – microbiomics, etc. Omics technologies include acquiring, managing, and processing large volumes of biological information, including medical, genetic, biochemical, and biophysical data, and require computer-based resources, such as data repositories, algorithms, and theoretical approaches to deal with the sheer volume of the data application of such omics technologies in dermatology, and skin biology was named “skinomics.”

Introduction

Due to its accessibility, skin was one of the first tissues analyzed using “omics,” and dermatology was the medical discipline to embrace the approach very early. In three specific areas the omics methodology has made great...

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References

  • Banno T, Adachi M, Mukkamala L, Blumenberg M. Unique keratinocyte-specific effects of interferon-gamma that protect skin from viruses, identified using transcriptional profiling. Antivir Ther. 2003;8(6):541–54.

    CAS  PubMed  Google Scholar 

  • Benson NR, Papenfuss J, Wong R, Motaal A, Tran V, Panko J, et al. An analysis of select pathogenic messages in lesional and non-lesional psoriatic skin using non-invasive tape harvesting. J Invest Dermatol. 2006;126(10):2234–41.

    CAS  PubMed  Google Scholar 

  • Bowcock AM, Krueger JG. Getting under the skin: the immunogenetics of psoriasis. Nat Rev Immunol. 2005;5(9):699–711.

    CAS  PubMed  Google Scholar 

  • DeRisi J, Penland L, Brown PO, Bittner ML, Meltzer PS, Ray M, et al. Use of a cDNA microarray to analyse gene expression patterns in human cancer. Nat Genet. 1996;14(4):457–60.

    CAS  PubMed  Google Scholar 

  • Gao Z, Tseng CH, Pei Z, Blaser MJ. Molecular analysis of human forearm superficial skin bacterial biota. Proc Natl Acad Sci U S A. 2007;104(8):2927–32.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Gao Z, Tseng CH, Strober BE, Pei Z, Blaser MJ. Substantial alterations of the cutaneous bacterial biota in psoriatic lesions. PLoS One. 2008 Jul 23;3(7):e2719.

    PubMed Central  PubMed  Google Scholar 

  • Grice EA, Kong HH, Conlan S, Deming CB, Davis J, Young AC, et al. Topographical and temporal diversity of the human skin microbiome. Science. 2009;324(5931):1190–2.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Gudjonsson JE, Ding J, Johnston A, Tejasvi T, Guzman AM, Nair RP, et al. Assessment of the psoriatic transcriptome in a large sample: additional regulated genes and comparisons with in vitro models. J Invest Dermatol. 2010;130(7):1829–40.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Iyer VR, Eisen MB, Ross DT, Schuler G, Moore T, Lee JC, et al. The transcriptional program in the response of human fibroblasts to serum. Science. 1999;283(5398):83–7.

    CAS  PubMed  Google Scholar 

  • Kaufman CK, Zhou P, Pasolli HA, Rendl M, Bolotin D, Lim KC, et al. GATA-3: an unexpected regulator of cell lineage determination in skin. Dissection of a complex enhancer element: maintenance of keratinocyte specificity but loss of differentiation specificity. Genes Dev. 2003;17(17):2108–22.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Li D, Turi TG, Schuck A, Freedberg IM, Khitrov G, Blumenberg M. Rays and arrays: the transcriptional program in the response of human epidermal keratinocytes to UVB illumination. FASEB J. 2001;15(13):2533–5.

    CAS  PubMed  Google Scholar 

  • Liu W, Peng Y, Tobin DJ. A new 12-gene diagnostic biomarker signature of melanoma revealed by integrated microarray analysis. PeerJ. 2013;1(doi):e49.

    PubMed Central  PubMed  Google Scholar 

  • Lopez-Pajares V, Yan K, Zarnegar BJ, Jameson KL, Khavari PA. Genetic pathways in disorders of epidermal differentiation. Trends Genet. 2013;29(1):31–40.

    CAS  PubMed  Google Scholar 

  • Nair RP, Duffin KC, Helms C, Ding J, Stuart PE, Goldgar D, et al. Genome-wide scan reveals association of psoriasis with IL-23 and NF-kappaB pathways. Nat Genet. 2009;41(2):199–204.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Nan H, Kraft P, Qureshi AA, Guo Q, Chen C, Hankinson SE, et al. Genome-wide association study of tanning phenotype in a population of European ancestry. J Invest Dermatol. 2009;129(9):2250–7.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Nan H, Xu M, Kraft P, Qureshi AA, Chen C, Guo Q, et al. Genome-wide association study identifies novel alleles associated with risk of cutaneous basal cell carcinoma and squamous cell carcinoma. Hum Mol Genet. 2011;20(18):3718–24.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Robbins PB, Sheu SM, Goodnough JB, Khavari PA. Impact of laminin 5 beta3 gene versus protein replacement on gene expression patterns in junctional epidermolysis bullosa. Hum Gene Ther. 2001;12(11):1443–8.

    CAS  PubMed  Google Scholar 

  • Stahl PL, Stranneheim H, Asplund A, Berglund L, Ponten F, Lundeberg J. Sun-induced nonsynonymous p53 mutations are extensively accumulated and tolerated in normal appearing human skin. J Invest Dermatol. 2011;131(2):504–8.

    CAS  PubMed  Google Scholar 

  • Suarez-Farinas M, Li K, Fuentes-Duculan J, Hayden K, Brodmerkel C, Krueger JG. Expanding the psoriasis disease profile: interrogation of the skin and serum of patients with moderate-to-severe psoriasis. J Invest Dermatol. 2012;132(11):2552–64.

    CAS  PubMed Central  PubMed  Google Scholar 

  • Wachsman W, Morhenn V, Palmer T, Walls L, Hata T, Zalla J, et al. Noninvasive genomic detection of melanoma. Br J Dermatol. 2011;164(4):797–806.

    CAS  PubMed Central  PubMed  Google Scholar 

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Correspondence to Miroslav Blumenberg .

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Blumenberg, M. (2015). SKINOMICS: Transcriptional Profiling in Dermatology and Skin Biology. In: Highlander, S.K., Rodriguez-Valera, F., White, B.A. (eds) Encyclopedia of Metagenomics. Springer, Boston, MA. https://doi.org/10.1007/978-1-4899-7475-4_801

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