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Hao Mei

Hao Mei

University of Mississippi Medical Center, USA

Title: The uniform-score gene set analysis of genetic pathways associated with diabetes traits

Biography

Hao Mei has completed his PhD from North Carolina State University with majors in Statistics and Bioinformatics and his Postdoctoral studies from Center for Human Genetics at Duke University. He is currently Associate Professor of University of Mississippi Medical Center and Professor of Shanghai Jiao Tong University. He is an Active Investigator of Jackson Heart Study and Atherosclerosis Risk in Communities Study and he has published more than 20 papers in reputed journals for genetic study of complex disease.

Abstract

Genetic heritability and expression study have shown that diff erent diabetes traits have common genetic components and pathways. Th e Uniform-Score Gene-Set Analysis (USGSA) is a computationally effi cient method for pathway enrichment test that unifi es diff erent gene measures by a uniform score for identifying pathways from genome-wide association and expression data and an R package of snp Gene Sets is implemented to facilitate the analysis. USGSA was applied to identify common pathways associated with diabetes traits based on public dbGaP GWAS results following a two-stage study strategy: the stage I of 11 Framingham Heart Study (FHS) GWAS and the stage II of 5 independent GWAS. Th e study identifi ed 7 gene sets that contain binding motifs at promoter region of component genes for 5 Transcription Factors (TFs) of FOXO4, TCF3, NFAT, VSX1 and POU2F1 and microRNA of mir-218. Th ese gene sets include 25 common genes that are among top 5% of the gene associations over genome for all GWAS. To further evaluate the identifi ed diabetes pathways, 30 microarray data of diff erent tissues was retrieved from the Gene Expression Omnibus. Th e USGSA with meta-analysis showed that 6 gene sets are also enriched for top 5% of the diff erential gene expressions. Th e pathway analysis suggested that diff erent diabetes traits share common pathways and diabetes pathogenesis at varied tissues is potentially regulated by common TFs and microRNA.