Recent genome-wide association studies (GWAS) of psoriasis have identified 41 psoriasis susceptibility loci, and we are currently applying multiple genetic and genomic assets to the molecular genetic dissection of psoriasis, which provide a uniquely powerful platform for identification of causal variants in PsC and PsA. Finding the functional basis of disease-associated genetic variation is a major goal in the analysis of disease associations in psoriasis and all complex genetic disorders, because it provides a molecular link between genotype and phenotype. To date, however, convincing demonstration of disease associated variant-specific function is uncommon in psoriasis as well as in other complex genetic disorders. In many instances, this has been due to incomplete and/or inaccurate determination of the functional variants. The statistical expertise that we will bring t bear on our unique datasets will allow much better definition of molecular targets for functional studies. Moreover, our laboratories have strong expertise in keratinocyte biology and immunology, providing complementary platforms for the functional exploration of identified variants. Finally, it is important to note that functional analysis of individual variants is not te only goal of this research. In order to benefit patients via the development of new therapies and fulfill the promise of personalized medicine, it is of key importance to rigorously identify the molecular pathways that they delineate. Based on these considerations, we advance the hypothesis that the functions of individual genetic variants and the pathways they delineate can be identified, using currently or soon-to-be available data, given an integrated approach that integrates biostatistical and biological expertise relevant to psoriasis. To test this hypothesis, e propose the following specific aims: 1. To accurately identify causal variant candidates in psoriasis using novel statistical tools. This will be accomplished by (a) applying multiple rounds of conditional analysis and preferential linkage disequilibrium (PLD) analysis to GWAS-IChip meta-analysis, targeted resequencing, PsA GWAS, and exome array datasets;(b) expanded analysis of MHC differences between PsA and PsC;and (c) further analysis of identified variants in an expanded sample. 2. To systematically predict the potential effects of the disease-associated variants identified in Aim 1. This will be accomplished by (a) prediction of functional effects of newly-identified coding variants;(b) systematic assessment of non-coding variants utilizing the ENCODE database;(c) utilization of our RNASeq data for assessment of the effects of candidate cis-acting variants;and (d) systematic assessment of pathways likely to connect multiple variants in functional terms. 3. Functional testing of identified variants using a keratinocyte (KC)-based platform. This will be accomplished by measurement of signal transduction responses as a function of genotype for the D10N variant in TRAF3IP2 using (a) normal human keratinocytes (NHK) harvested from individuals bearing different TRAF3IP2 genotypes and (b) transfection of """"""""wild type"""""""" vs variant alleles into immortalized KC with or without silencing of endogenous TRAF3IP2. We will also (c) extend this approach to predicted damaging variants identified from Aims 1 and 2 as likely to be important in KC. 4. Functional testing of identified variants using a blood-based, living-cell platform. This will be accomplished by (a) separation of monocytes and T-cells from the blood of individuals of known genotypes for the P1104A and I684S variants in TYK2, followed by measurement of signal transduction responses as a function of genotype. We will also (b) extend these studies to predicted damaging variants at other loci identified from Aims 1 and 2 as likely to be important in immunocytes.

Public Health Relevance

Psoriasis is a major health problem in the United States. The mechanisms that predispose patients to cutaneous psoriasis vs. psoriatic arthritis are unknown. The proposed research will utilize the power of existing genome-wide association studies including the Immunochip, targeted resequencing of psoriasis susceptibility loci, transcriptome analysis, and our expertise in keratinocyte biology and skin immunobiology to address major gaps in our mechanistic understanding of the causes of psoriasis. The results of this research are also likely to be relevant to other autoimmune diseases.

Agency
National Institute of Health (NIH)
Institute
National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIAMS)
Type
Research Project (R01)
Project #
5R01AR065183-02
Application #
8731771
Study Section
Special Emphasis Panel (ZRG1)
Program Officer
Cibotti, Ricardo
Project Start
2013-09-15
Project End
2017-07-31
Budget Start
2014-08-01
Budget End
2015-07-31
Support Year
2
Fiscal Year
2014
Total Cost
Indirect Cost
Name
University of Michigan Ann Arbor
Department
Dermatology
Type
Schools of Medicine
DUNS #
City
Ann Arbor
State
MI
Country
United States
Zip Code
48109
Tsoi, Lam C; Yang, Jingjing; Liang, Yun et al. (2018) Transcriptional determinants of individualized inflammatory responses at anatomically separate sites. J Allergy Clin Immunol 141:805-808
Tsoi, Lam C; Patrick, Matthew T; Elder, James T (2018) Research Techniques Made Simple: Using Genome-Wide Association Studies to Understand Complex Cutaneous Disorders. J Invest Dermatol 138:e23-e29
Yu, Ning; Lambert, Sylviane; Bornstein, Joshua et al. (2018) The Act1 D10N missense variant impairs CD40 signaling in human B-cells. Genes Immun :
Swindell, William R; Beamer, Maria A; Sarkar, Mrinal K et al. (2018) RNA-Seq Analysis of IL-1B and IL-36 Responses in Epidermal Keratinocytes Identifies a Shared MyD88-Dependent Gene Signature. Front Immunol 9:80
Enerbäck, C; Sandin, C; Lambert, S et al. (2018) The psoriasis-protective TYK2 I684S variant impairs IL-12 stimulated pSTAT4 response in skin-homing CD4+ and CD8+ memory T-cells. Sci Rep 8:7043
Hermann, Helen; Runnel, Toomas; Aab, Alar et al. (2017) miR-146b Probably Assists miRNA-146a in the Suppression of Keratinocyte Proliferation and Inflammatory Responses in Psoriasis. J Invest Dermatol 137:1945-1954
Budu-Aggrey, Ashley; Bowes, John; Stuart, Philip E et al. (2017) A rare coding allele in IFIH1 is protective for psoriatic arthritis. Ann Rheum Dis 76:1321-1324
Dand, Nick; Mucha, Sören; Tsoi, Lam C et al. (2017) Exome-wide association study reveals novel psoriasis susceptibility locus at TNFSF15 and rare protective alleles in genes contributing to type I IFN signalling. Hum Mol Genet 26:4301-4313
Niehues, Hanna; Tsoi, Lam C; van der Krieken, Danique A et al. (2017) Psoriasis-Associated Late Cornified Envelope (LCE) Proteins Have Antibacterial Activity. J Invest Dermatol 137:2380-2388
Sarkar, Mrinal K; Kaplan, Nihal; Tsoi, Lam C et al. (2017) Endogenous Glucocorticoid Deficiency in Psoriasis Promotes Inflammation and Abnormal Differentiation. J Invest Dermatol 137:1474-1483

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