Next generation tools for genomic data generation, distribution, and visualization

Background: With the rapidly falling cost and availability of high throughput sequencing and microarray technologies, the bottleneck for effectively using genomic analysis in the laboratory and clinic is shifting to one of effectively managing, analyzing, and sharing genomic data. Results: Here we present three open-source, platform independent, software tools for generating, analyzing, distributing, and visualizing genomic data. These include a next generation sequencing/microarray LIMS and analysis project center (GNomEx); an application for annotating and programmatically distributing genomic data using the community vetted DAS/2 data exchange protocol (GenoPub); and a standalone Java Swing application (GWrap) that makes cutting edge command line analysis tools available to those who prefer graphical user interfaces. Both GNomEx and GenoPub use the rich client Flex/Flash web browser interface to interact with Java classes and a relational database on a remote server. Both employ a ...

• Type: Journal
• Year: 2010
• Where: BMCBI
• Authors: David A. Nix, Tonya L. Di Sera, Brian K. Dalley, Brett A. Milash, Robert M. Cundick, Kevin S. Quinn, Samir J. Courdy
• Keywords: BMCBI 2010, Genomic Analysis, Genomic Data, Genomic Data Repositories