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ARS Home » Northeast Area » Ithaca, New York » Robert W. Holley Center for Agriculture & Health » Plant, Soil and Nutrition Research » Research » Publications at this Location » Publication #305060

Title: A genome-wide association study platform built on iPlant cyber-infrastructure

item WANG, LIYA - Cold Spring Harbor Laboratory
item Ware, Doreen
item LUSHBOUGH, CAROL - University Of South Dakota
item MERCHANG, NIRAV - University Of Arizona
item STEIN, LINCOLN - University Of Toronto

Submitted to: Concurrency and Computation: Practice and Experience
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 1/30/2014
Publication Date: 3/6/2014
Citation: Wang, L., Ware, D., Lushbough, C., Merchang, N., Stein, L. 2014. A genome-wide association study platform built on iPlant cyber-infrastructure. Concurrency and Computation: Practice and Experience. DOI: 10.1002/cpe.3236.

Interpretive Summary: iPlant Collaborative is a National Science Foundation project funded in 2008 (#DBI-0735191), and renewed in 2013, that has created an innovative, comprehensive, and foundational cyber-infrastructure in support of plant biology research. One of iPlant’s major efforts is building a Genome Wide Association (GWA) Study (GWAS) platform to support data storage, sharing, and large scale computation.

Technical Abstract: We demonstrated a flexible Genome-Wide Association (GWA) Study (GWAS) platform built upon the iPlant Collaborative Cyber-infrastructure. The platform supports big data management, sharing, and large scale study of both genotype and phenotype data on clusters. End users can add their own analysis tools, and create customized analysis workflows through the graphical user interfaces in both iPlant Discovery Environment and BioExtract server.