BioExtract
The BioExtract Server is a web-based system for querying biomolecular sequence data, executing analytic tools on the resulting extracts, and constructing workflows composed of such queries and tools.[1]
It offers a central distribution point for uniformly formatted data from a variety of resources including EMBL, SwissProt, and PlantGDB.
It also gives researchers access to a variety of analytic tools, including BLAST, Clustal, and T-Coffee, and the BioMOBY and EBI Soaplab Web services.
Researchers create workflows implicitly by working with the system. Tasks such as saving a data extract, executing an analytic tool, and querying a data source are automatically saved each time they are performed during a session. At any time, a workflow can be created by saving these recorded tasks, and once saved, the workflow can be edited.[2][3][4]
The BioExtract Server was created in The Brendel Group[5] at Iowa State University in collaboration with Visual Metrics Corporation funded by NSF grant 0090732.[6] Continuing development by the Lushbough Bioinformatics Group at The University of South Dakota is supported by NSF grant 0321600.[7]
External links
References
- ↑ Lushbough, C., Lawrence, C.J., Bergman, M., Jennewein, D., and Brendel, V., (2008) BioExtract Server – An Integrated System to Access and Analyze Heterogeneous, Distributed Biomolecular Data, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 11 Sept 2008. IEEE Computer Society Digital Library. IEEE Computer Society, 8 January 2009.
- ↑ Lushbough, C., Lawrence, C.J., Bergman, M., Jennewein, D., and Brendel, V., (2008) Implementing Bioinformatic Workflows within the BioExtract Server, International Journal of Computational Biology and Drug Design 2008 - Vol. 1, No.3 pp. 302 – 312.
- ↑ Lushbough, C., Lawrence, C.J., Bergman, M., Jennewein, D., and Brendel, V., (2008) An Overview of the BioExtract Server – a Distributed, Web Based Application for Bioinformatics Analysis, Proceedings of the 2008 International Conference on Bioinformatics and Computational Biology, WorldComp’08, Las Vegas, Nevada, USA July 14–17, 2008.
- ↑ Lushbough, C., Lawrence, C.J., Bergman, M., Jennewein, D., and Brendel, V., (2007) Creating Bioinformatic Workflows with the BioExtract Server, Proceedings of the 2007 International Conference on Bioinformatics and Computational Biology, WorldComp’07, Las Vegas, Nevada, USA June 25–28, 2007.
- ↑ http://brendelgroup.org
- ↑ Award Abstract #0090732 Efficient Web-based Serving of Consolidated Multi-Source Biological Sequence Data Extracts
- ↑ Award Abstract #0321600 PlantGDB - Plant Genome Database and Analysis Tools