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Identification of possible pathogenic pathways in Behçet's disease using genome-wide association study data from two different populations

Bakır-Güngör, Burcu and Remmers, Elaine F. and Meguro, Akira and Mizuki, Nobuhisa and Kastner, Daniel L. and Gül, Ahmet and Sezerman, Uğur (2014) Identification of possible pathogenic pathways in Behçet's disease using genome-wide association study data from two different populations. European Journal of Human Genetics . ISSN 1018-4813 (Print) 1476-5438 (Online)

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Official URL: http://dx.doi.org/10.1038/ejhg.2014.158

Abstract

Behçet's disease (BD) is a multi-system inflammatory disorder of unknown etiology. Two recent genome-wide association studies (GWASs) of BD confirmed a strong association with the MHC class I region and identified two non-HLA common genetic variations. In complex diseases, multiple factors may target different sets of genes in the same pathway and thus may cause the same disease phenotype. We therefore hypothesized that identification of disease-associated pathways is critical to elucidate mechanisms underlying BD, and those pathways may be conserved within and across populations. To identify the disease-associated pathways, we developed a novel methodology that combines nominally significant evidence of genetic association with current knowledge of biochemical pathways, protein-protein interaction networks, and functional information of selected SNPs. Using this methodology, we searched for the disease-related pathways in two BD GWASs in Turkish and Japanese case-control groups. We found that 6 of the top 10 identified pathways in both populations were overlapping, even though there were few significantly conserved SNPs/genes within and between populations. The probability of random occurrence of such an event was 2.24E-39. These shared pathways were focal adhesion, MAPK signaling, TGF-β signaling, ECM-receptor interaction, complement and coagulation cascades, and proteasome pathways. Even though each individual has a unique combination of factors involved in their disease development, the targeted pathways are expected to be mostly the same. Hence, the identification of shared pathways between the Turkish and the Japanese patients using GWAS data may help further elucidate the inflammatory mechanisms in BD pathogenesis.

Item Type:Article
Uncontrolled Keywords:Genome-wide association study (GWAS), Pathway, Single nucleotide polymorphism (SNP), protein-protein interaction network, complex disease
Subjects:R Medicine > R Medicine (General)
ID Code:26328
Deposited By:Uğur Sezerman
Deposited On:12 Dec 2014 14:58
Last Modified:12 Dec 2014 14:58

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