Integrative clinical transcriptomics analyses for new therapeutic intervention strategies: A psoriasis case study

Drug Discovery Today

Volumn 19, Issue 9, 2014, Pages 1364-1371

  Qu, Xiaoyan A ^a   Freudenberg, Johannes M ^a   Sanseau, Philippe ^b   Rajpal, Deepak K ^a  

^a GLAXOSMITHKLINE   (United States)

^b GLAXOSMITHKLINE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ALPHA INTERFERON; ANTIPSORIASIS AGENT; BIOLOGICAL MARKER; ETANERCEPT; INTERLEUKIN 12; INTERLEUKIN 17; INTERLEUKIN 1BETA; INTERLEUKIN 23; INTERLEUKIN 6; IXEKIZUMAB; MONOCYTE CHEMOTACTIC PROTEIN 1; NEW DRUG; TUMOR NECROSIS FACTOR ALPHA; DERMATOLOGICAL AGENT; TRANSCRIPTOME;

ADAPTIVE IMMUNITY; DRUG REPOSITIONING; GENE EXPRESSION; HUMAN; PATHOPHYSIOLOGY; PHOTOTHERAPY; PSORIASIS; REVIEW; T LYMPHOCYTE; TRANSCRIPTOMICS; DRUG DESIGN; GENETICS; METABOLISM; MOLECULARLY TARGETED THERAPY;

BIOLOGICAL MARKERS; DERMATOLOGIC AGENTS; DRUG DESIGN; DRUG REPOSITIONING; HUMANS; MOLECULAR TARGETED THERAPY; PSORIASIS; TRANSCRIPTOME;

EID: 84907851307     PISSN: 13596446     EISSN: 18785832     Source Type: Journal    
DOI: 10.1016/j.drudis.2014.03.015     Document Type: Review

References (68)

1. S.K. Kurd, and J.M. Gelfand The prevalence of previously diagnosed and undiagnosed psoriasis in US adults: results from NHANES 2003-2004 J. Am. Acad. Dermatol. 60 2009 218 224
2. R.S. Stern Psoriasis is common, carries a substantial burden even when not extensive, and is associated with widespread treatment dissatisfaction J. Investig. Dermatol. Symp. Proc. 9 2004 136 139
3. J.E. Gudjonsson, and J.T. Elder Psoriasis: epidemiology Clin. Dermatol. 25 2007 535 546
4. P. Gisondi Prevalence of psoriatic arthritis and joint complaints in a large population of Italian patients hospitalised for psoriasis Eur. J. Dermatol. 15 2005 279 283
5. J.T. Elder Genome-wide association scan yields new insights into the immunopathogenesis of psoriasis Genes Immun. 10 2009 201 209
6. J.E. Gudjonsson Analysis of global gene expression and genetic variation in psoriasis J. Am. Acad. Dermatol. 57 2007 365
7. J.J. Rivas Bejarano, and W.C. Valdecantos Psoriasis as autoinflammatory disease Dermatol. Clin. 31 2013 445 460
8. E.A. Kupetsky Anti-cytokine therapy in the treatment of psoriasis Cytokine 61 2013 704 712
9. E.Y. Gan Therapeutic strategies in psoriasis patients with psoriatic arthritis: focus on new agents BioDrugs 27 2013 359 373
10. S.A. Davis, and S.R. Feldman Combination therapy for psoriasis in the United States J. Drugs Dermatol. 12 2013 546 550
11. P. Mudigonda Interleukin-23 and interleukin-17: importance in pathogenesis and therapy of psoriasis Dermatol. Online J. 18 2012 1
12. E. Dommasch, and J.M. Gelfand Is there truly a risk of lymphoma from biologic therapies? Dermatol. Ther. 22 2009 418 430
13. F. Kamangar An evidence-based review of skin cancer rates on biologic therapies J. Dermatol. Treat. 23 2012 305 315
14. X.A. Qu, and D.K. Rajpal Applications of connectivity map in drug discovery and development Drug Discov. Today 17 2012 1289 1298
15. J.K. Kulski Gene expression profiling of Japanese psoriatic skin reveals an increased activity in molecular stress and immune response signals J. Mol. Med. 83 2005 964 975
16. J. Reischl Increased expression of Wnt5a in psoriatic plaques J. Invest. Dermatol. 127 2007 163 169
17. Y. Yao Type I interferon: potential therapeutic target for psoriasis? PLoS ONE 3 2008 e2737
18. R.P. Nair Genome-wide scan reveals association of psoriasis with IL-23 and NF-kappaB pathways Nat. Genet. 41 2009 199 204
19. W.R. Swindell Genome-wide expression profiling of five mouse models identifies similarities and differences with human psoriasis PLoS ONE 6 2011 e18266
20. M. Suarez-Farinas Expanding the psoriasis disease profile: interrogation of the skin and serum of patients with moderate-to-severe psoriasis J. Invest. Dermatol. 132 2012 2552 2564
21. J. Bigler Cross-study homogeneity of psoriasis gene expression in skin across a large expression range PLoS ONE 8 2013 e52242
22. L.C. Zaba Effective treatment of psoriasis with etanercept is linked to suppression of IL-17 signaling, not immediate response TNF genes J. Allergy Clin. Immunol. 124 2009 1022 1110
23. J.G. Krueger IL-17A is essential for cell activation and inflammatory gene circuits in subjects with psoriasis J. Allergy Clin. Immunol. 130 2012 145 154
24. P. Cahan Meta-analysis of microarray results: challenges, opportunities, and recommendations for standardization Gene 401 2007 12 18
25. D.R. Rhodes Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression Proc. Natl. Acad. Sci. U. S. A. 101 2004 9309 9314
26. P. Hu Microarray meta-analysis identifies acute lung injury biomarkers in donor lungs that predict development of primary graft failure in recipients PLoS ONE 7 2012 e45506
27. T. Barrett NCBI GEO: archive for functional genomics data sets: update Nucleic Acids Res. 41 2013 D991 D995
28. L.M. Johnson-Huang A single intradermal injection of IFN-gamma induces an inflammatory state in both non-lesional psoriatic and healthy skin J. Invest. Dermatol. 132 2012 1177 1187
29. M. Dai Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data Nucleic Acids Res. 33 2005 e175
30. J.M. Freudenberg Gastrointestinal weight-loss surgery: glimpses at the molecular level Drug Discov. Today 18 2013 625 636
31. G.K. Smyth Linear models and empirical bayes methods for assessing differential expression in microarray experiments Stat. Appl. Genet. Mol. Biol. 3 2004 Article 3
32. S. Tian Meta-analysis derived (MAD) transcriptome of psoriasis defines the 'core' pathogenesis of disease PLoS ONE 7 2012 e44274
33. W.R. Swindell Dissecting the psoriasis transcriptome: inflammatory- and cytokine-driven gene expression in lesions from 163 patients BMC Genomics 14 2013 527
34. J.M. Freudenberg CLEAN: CLustering Enrichment ANalysis BMC Bioinformatics 10 2009 234
35. M.C. Genovese LY2439821, a humanized anti-interleukin-17 monoclonal antibody, in the treatment of patients with rheumatoid arthritis: a phase I randomized, double-blind, placebo-controlled, proof-of-concept study Arthritis Rheum. 62 2010 929 939
36. Q. Shen Liver X receptor-retinoid X receptor (LXR-RXR) heterodimer cistrome reveals coordination of LXR and AP1 signaling in keratinocytes J. Biol. Chem. 286 2011 14554 14563
37. A.J. Fowler Liver X receptor activators display anti-inflammatory activity in irritant and allergic contact dermatitis models: liver-X-receptor-specific inhibition of inflammation and primary cytokine production J. Invest. Dermatol. 120 2003 246 255
38. Y. Vasilopoulos High serum levels of HIF-1alpha in psoriatic patients correlate with an over-expression of IL-6 Cytokine 62 2013 38 39
39. L. Di Is antitumour necrosis factor therapy combined with ultraviolet B phototherapy safe? Br. J. Dermatol. 162 2010 1147 1148
40. E.F. Chakravarty Skin cancer, rheumatoid arthritis, and tumor necrosis factor inhibitors J. Rheumatol. 32 2005 2130 2135
41. J. Sheppard Skin cancer in psoriatic arthritis treated with anti-TNF therapy Rheumatology 46 2007 1622 1623
42. M.R. Hurle Computational drug repositioning: from data to therapeutics Clin. Pharmacol. Ther. 93 2013 335 341
43. F.S. Collins Reengineering translational science: the time is right Sci. Transl. Med. 3 2011 90cm17
44. J.B. Richards Genetics of osteoporosis from genome-wide association studies: advances and challenges Nat. Rev. Genet. 13 2012 576 588
45. W. Yu A navigator for human genome epidemiology Nat. Genet. 40 2008 124 125
46. P. Sanseau Use of genome-wide association studies for drug repositioning Nat. Biotechnol. 30 2012 317 320
47. K.D. Cooper Interleukin-1 in human skin: dysregulation in psoriasis J. Invest. Dermatol. 95 1990 24S 26S
48. T. Lane, and H.J. Lachmann The emerging role of interleukin-1beta in autoinflammatory diseases Curr. Allergy Asthma Rep. 11 2011 361 368
49. C. Buerger Interleukin-1beta interferes with epidermal homeostasis through induction of insulin resistance: implications for psoriasis pathogenesis J. Invest. Dermatol. 132 2012 2206 2214
50. J. Sun Curcumin inhibits imiquimod-induced psoriasis-like inflammation by inhibiting IL-1beta and IL-6 production in mice PLoS ONE 8 2013 e67078
51. A. Wojas-Pelc, and J. Marcinkiewicz What is a role of haeme oxygenase-1 in psoriasis? Current concepts of pathogenesis Int. J. Exp. Pathol. 88 2007 95 102
52. K.J. Trouba Oxidative stress and its role in skin disease Antioxid. Redox Signal. 4 2002 665 673
53. A. Johnston IL-1F5, -F6, -F8, and -F9: a novel IL-1 family signaling system that is active in psoriasis and promotes keratinocyte antimicrobial peptide expression J. Immunol. 186 2011 2613 2622
54. A. Onoufriadis Mutations in IL36RN/IL1F5 are associated with the severe episodic inflammatory skin disease known as generalized pustular psoriasis Am. J. Hum. Genet. 89 2011 432 437
55. N. Setta-Kaffetzi Rare pathogenic variants in IL36RN underlie a spectrum of psoriasis-associated pustular phenotypes J. Invest. Dermatol. 133 2013 1366 1369
56. L. Tortola Psoriasiform dermatitis is driven by IL-36-mediated DC-keratinocyte crosstalk J. Clin. Invest. 122 2012 3965 3976
57. H. Blumberg Opposing activities of two novel members of the IL-1 ligand family regulate skin inflammation J. Exp. Med. 204 2007 2603 2614
58. R. Debets Two novel IL-1 family members, IL-1 delta and IL-1 epsilon, function as an antagonist and agonist of NF-kappa B activation through the orphan IL-1 receptor-related protein 2 J. Immunol. 167 2001 1440 1446
59. J. Lamb The connectivity map: using gene-expression signatures to connect small molecules, genes, and disease Science 313 2006 1929 1935
60. A. Hrenn Plant phenolics inhibit neutrophil elastase Planta Med. 72 2006 1127 1131
61. P. Guo Gene expression profile based classification models of psoriasis Genomics 103 2014 48 55
62. J.G. Krueger, and A. Bowcock Psoriasis pathophysiology: current concepts of pathogenesis Ann. Rheum. Dis. 64 Suppl. 2 2005 ii30 ii36
63. T.C. Lucka Efficacy of systemic therapies for moderate-to-severe psoriasis: a systematic review and meta-analysis of long-term treatment J. Eur. Acad. Dermatol. Venereol. 26 2012 1331 1344
64. M. Suarez-Farinas Evaluation of the psoriasis transcriptome across different studies by gene set enrichment analysis (GSEA) PLoS ONE 5 2010 e10247
65. W.R. Swindell Modulation of epidermal transcription circuits in psoriasis: new links between inflammation and hyperproliferation PLoS ONE 8 2013 e79253
66. F. Wang Etanercept suppresses regenerative hyperplasia in psoriasis by acutely downregulating epidermal expression of interleukin (IL)-19, IL-20 and IL-24 Br. J. Dermatol. 167 2012 92 102
67. L.C. Zaba Psoriasis is characterized by accumulation of immunostimulatory and Th1/Th17 cell-polarizing myeloid dendritic cells J. Invest. Dermatol. 129 2009 79 88
68. B. Li Transcriptome analysis of psoriasis in a large case-control sample: RNA-Seq provides insights into disease mechanisms J. Invest. Dermatol. 2014 10.1038/jid.2014.28 [Epub ahead of print]