EclipseCon 2007 March 5-8, Santa Clara California





Workflow-Based DNA Trace Resequencing Using Eclipse RCP, Draw2D and a Custom Look-n-Feel

Elias Fayad (Applied Biosystems)

· Short Talk

Thursday, 15:10, 10 minutes | Ballroom GHAB

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With the completion of the Human Genome Project, the shift from de novo sequencing to direct sequencing (“resequencing”) has created the need for more accurate variant detection for medical research and clinical diagnostics. The bottleneck in the workflow, from DNA extraction to result data analysis, is attributable to the manual review of individual nucleotide bases. This manual review is necessitated by the need for confidence in the variant result.

This talk will show a flexible workflow-based system using a custom WorkbenchPresentationFactory, RCP, and Draw2D to enable researchers to obtain high confidence results in less time. Quality visualization tools and methods for filtering low quality data were integrated into the system along with less complex variant review and reporting tools to allow researchers to quickly analyze data.

Elias Fayad is a staff software engineer at Applied Biosystems, located in Foster City, California. His current primary focus is on the development of Variant Reporter, a next generation genetic resequencing application built with the Eclipse RCP. Prior to joining Applied Biosystems in early 2006, he spent several years leading the development of information visualization tools.

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