CPAG: software for leveraging pleiotropy in GWAS to reveal similarity between human traits links plasma fatty acids and intestinal inflammation.
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/.
Type
Journal articleSubject
AnimalsCluster Analysis
Crohn Disease
Enterocolitis
Fatty Acids, Monounsaturated
Genetic Pleiotropy
Genome-Wide Association Study
Humans
Phenotype
Polymorphism, Single Nucleotide
Software
Zebrafish
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http://hdl.handle.net/10161/10609Published Version (Please cite this version)
10.1186/s13059-015-0722-1Publication Info
(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.This is constructed from limited available data and may be imprecise. To cite this
article, please review & use the official citation provided by the journal.
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Show full item recordScholars@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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