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Illumina GA IIx& HiSeq 2000 Production Sequenccing and QC Analysis Pipelines at the DOE Joint Genome Institute

By Christopher Daum, Matthew Zane, James Han, Megan Kennedy, Matthew San Diego, Alex Copeland, Mingkun Li and Susan Lucas

Abstract

The U.S. Department of Energy (DOE) Joint Genome Institute's (JGI) Production Sequencing group is committed to the generation of high-quality genomic DNA sequence to support the mission areas of renewable energy generation, global carbon management, and environmental characterization and clean-up. Within the JGI's Production Sequencing group, a robust Illumina Genome Analyzer and HiSeq pipeline has been established. Optimization of the sesequencer pipelines has been ongoing with the aim of continual process improvement of the laboratory workflow, reducing operational costs and project cycle times to increases ample throughput, and improving the overall quality of the sequence generated. A sequence QC analysis pipeline has been implemented to automatically generate read and assembly level quality metrics. The foremost of these optimization projects, along with sequencing and operational strategies, throughput numbers, and sequencing quality results will be presented

Topics: Management, Dna, 59, Pipelines, Biology, Production, Optimization, Carbon, Metrics
Publisher: Lawrence Berkeley National Laboratory
Year: 2011
DOI identifier: 10.2172/1010544
OAI identifier:
Provided by: UNT Digital Library
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