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United States Department of Agriculture

Agricultural Research Service

Research Project: THE MAIZE GENETICS AND GENOMICS DATABASE Title: POPcorn: A PrOject Portal for corn

item Cannon, Ethalinda -
item Birkett, Scott -
item Braun, Bremen -
item Gardiner, Jack -
item Sen, Taner
item Lawrence, Carolyn

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: October 22, 2010
Publication Date: January 15, 2011
Citation: Cannon, E., Birkett, S.M., Braun, B.L., Gardiner, J.M., Sen, T.Z., Lawrence, C.J. 2011. POPcorn: A PrOject Portal for corn. Plant and Animal Genome Conference. 2011(1):267.

Technical Abstract: The rapidly increasing quantity of maize data available on the Internet means that locating and searching for relevant data and information is increasingly difficult for maize researchers. Finding appropriate sites and then learning how to navigate the sites can be difficult and time-consuming. Finding information associated with a particular sequence is likewise challenging, sometimes involving BLASTs (Basic Local Alignment Search Tool) at multiple sites and database searches that require in-depth knowledge of the database architecture and other technical information. In addition, data generated by projects can become inaccessible after the completion of the project, or left untouched, only to degrade over time. The POPcorn (A Project Portal for Corn) project is addressing these problems by providing a set of search utilities for locating maize projects and Internet resources, BLASTing against multiple sequence targets provided by multiple projects and data warehouses, and for searching sequence-indexed data (i.e., data linked to nucleotide and/or protein sequences). To help avoid data from being lost when projects complete, POPcorn is also in the process of developing tools such as uBLAST for migrating project data to MaizeGDB (Maize Genomic Database) for long-term storage.

Last Modified: 7/28/2016