CPAG: software for leveraging pleiotropy in GWAS to reveal similarity between human traits links plasma fatty acids and intestinal inflammation.

Espenschied, ST; Ko, Dennis; Oehlers, SH; Rawls, John Franklin; Tobin, DM; Wang, L

doi:10.1186/s13059-015-0722-1

Abstract

Meta-analyses of genome-wide association studies (GWAS) have demonstrated that the same genetic variants can be associated with multiple diseases and other complex traits. We present software called CPAG (Cross-Phenotype Analysis of GWAS) to look for similarities between 700 traits, build trees with informative clusters, and highlight underlying pathways. Clusters are consistent with pre-defined groups and literature-based validation but also reveal novel connections. We report similarity between plasma palmitoleic acid and Crohn's disease and find that specific fatty acids exacerbate enterocolitis in zebrafish. CPAG will become increasingly powerful as more genetic variants are uncovered, leading to a deeper understanding of complex traits. CPAG is freely available at www.sourceforge.net/projects/CPAG/.

Publication Info

Espenschied, ST; Ko, Dennis; Oehlers, SH; Rawls, John Franklin; Tobin, DM; & Wang, L (2015). CPAG: software for leveraging pleiotropy in GWAS to reveal similarity between human traits links plasma fatty acids and intestinal inflammation. Genome Biol, 16. pp. 190. 10.1186/s13059-015-0722-1. Retrieved from http://hdl.handle.net/10161/10609.

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Scholars@Duke

Dennis Ko

Assistant Professor in Molecular Genetics and Microbiology

Using Pathogens to Decipher Genetic Variation Connecting Cell Biology and Disease SusceptibilityDespite improvements in public health, advancements in vaccines, and the development of many classes of antibiotics, infectious disease is still responsible for over a quarter of all deaths worldwide. However, even for the most devastating of pandemics, individuals demonstrate a large variability in the severity of infection. The long-term goal of the lab is to understand the ge

John Franklin Rawls

Associate Professor of Molecular Genetics and Microbiology

Our research uses multiple complementary approaches to understand how host-microbe interactions in the intestine regulate digestive physiology and energy balance. First, my lab uses genetic, gnotobiotic, and in vivo imaging approaches to determine how commensal microorganisms (microbiota) interact with vertebrate hosts to regulate their nutrition and immunity, as well as the mechanisms underlying assembly of intestinal microbial communities. We utilize the zebrafish as a host model in which host

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