Abstract Detail

Conference Wide

Hilgert, Uwe [1], Lyons, Eric [2].

The iPlant Cyberinfrastructure: Integration of Biological Data-sets, Computational Tools, and Analytical Workflows.

Research in plant biology depends increasingly on high-throughput data collection methods and complex computational analyses. Chartered by the National Science Foundation, the iPlant Collaborative presents a cyberinfrastructure that removes many of the barriers researchers face in managing and sharing large data sets as well as applying sophisticated computational analysis tools. This hands-on workshop will use interesting phylogenetic and genomics questions to introduce several iPlant technologies: Discovery Environment: iPlant's Internet-based system for managing data, running analyses, and creating workflows. The iPlant Discovery Environment bundles bioinformatics tools commonly used in genomics research and allows researchers to integrate and share their own tools. Atmosphere: iPlant offers cloud services for both installing complicated software packages and harnessing on-demand computational power. Atmosphere allows researchers to easily compile, launch and manage instances of Linux-based servers and to tackle complex and compute-intense analysis routines. Data Store: iPlant's data storage system gives researchers great flexibility and control over their data. It encompasses a variety of interfaces, from web services to mountable file systems to high speed command line transfers and integrates with Atmosphere and the Discovery Environment. The system allows fast uploads and can handle partial transfers, so that interrupted transfers can resume later. PhytoBisque: iPlant's integration of the BISQUE image analysis software system enables researchers to conduct quantitative, image-based phenotype studies. The longer-term vision is to integrate PhytoBisque outputs with genotype data so that plant biology research begins to build true multi-dimensional quantitative representations of the genotype-to-phenotype relationship.

Broader Impacts:

1 - University of Arizona, BIO5 Institute, 1657 E. Helen Str., Tucosn, AZ, 85721, USA
2 - University of Arizona, iPlant Collaborative, 1657 E. Helen Str., Keating Bldg., Tucson, AZ, 85721, USA

Keywords:
high throughput data
next generation sequencing
data analysis
data management
data visualization
genotype to phenotype
Phylogenetics
cloud computing
iplant
iplant collaborative.

Presentation Type: Workshop
Session: WS04
Location: Delaware B/Hyatt
Date: Sunday, July 8th, 2012
Time: 1:00 PM
Number: WS04001
Abstract ID:52