ARS | Publication request: MAIZEDB: OVERVIEW, DATA ACCESS/MINING

Submitted to: Plant and Animal Genome VX Conference Abstracts
Publication Type: Abstract Only
Publication Acceptance Date: November 10, 2002
Publication Date: January 11, 2003
Citation: Polacco, M.L., Chen, S., Fang, Z., Hancock, D., Sanchez-Villeda, H., Schroeder, S., Coe Jr, E.H. 2003. Maizedb: overview, data access/mining. Plant and Animal Genome Abstracts. V.10:278.

Technical Abstract: MaizeDB, www.agron.missouri.edu, focuses on documentation of genome maps and associated gene functions and expression. Functionality includes gene products, both empirically determined or inferred by sequence similarity, phenotypic variation, and agronomic traits. Documentation includes data sources, published literature, researchers with updated addresses, available genetic stocks, mutant images, available DNA clones, screening images, map scores, and recombination data; and in addition, relevant records in external databases. In this way, MaizeDB both credits sources and facilitates evaluation and reproducibility of data. What good are data if you can't access them? The computer demonstration and poster will highlight new accesses and their potential to facilitate discovery and to drive hypothesis-based research: 1) simplified form queries which return tables, rather than lists of symbols; 2) a BLAST server that supplies map data and links external database include ZmDB, CUGI, TIGR, and GenBank) to relevant databases in addition to sequence alignments and scores; and 3) hypertext, dynamic map viewers for genetic/physical map and for comparison of genetic maps, both inter- and intra-species. We thank the Rice Genome Program, Tsukuba, Japan, for source code to the Genome Information display Orderly Tool (GIOT) map viewer, the NSF for funding of the Maize Mapping Project, and the USDA for funding of MaizeDB.