Submitted to: International Cotton Genome Initiative Workshop
Publication Type: Abstract Only
Publication Acceptance Date: 6/6/2006
Publication Date: 9/18/2006
Citation: Yu, J., Hinze, L.L., Yu, J., Kohel, R.J. 2006. CottonDB.org - New website for cotton genome database [abstract]. In: Proceedings of International Cotton Genome Initiative Workshop, Evolutionary and Comparative Genomics and Bioinformatics Session, September 18-20, 2006, Brasilia, Brazil. Paper No. 4. Available: http://icgi.tamu.edu/pdf/icgi06_abs_final.pdf.
Technical Abstract: CottonDB was initiated in 1995 under a project sponsored by the United States Department of Agriculture (USDA) Agricultural Research Service (ARS) as a resource to contain the developing knowledge base in cotton genetics. CottonDB.org is the new home for the expanded and enhanced version of CottonDB. The purpose of CottonDB is to provide a convenient medium for cotton researchers to exchange information regarding germplasm, markers, genetic/physical maps, sequences, etc. through a website interface. CottonDB has been updated with several new features that allow researchers to easily browse and retrieve data from the database. Quick Queries allows the user to search for the most frequently requested information. The FPC viewer is a web viewer for visualizing BAC contig fingerprints. Further enhancements in progress include cMAP viewer, which will provide online map comparisons among two or more genetic or physical maps; Genome Browser for comparisons of the cotton vs. Arabidopsis genomes; and BLAST server, which will allow the user to blast their sequence against the available database of cotton sequences through a web interface. In addition to the individual features available for each of these tools, interactions among the tools and with other commonly used public databases (i.e. GENBANK, EMBL, and DDBJ) are also possible. Users of the database can easily submit their comments, suggestions, and corrections to the curator via an online interface so that CottonDB may be continually improved to best serve the cotton community.