Location: Corn Insects and Crop Genetics ResearchTitle: MaizeGDB update: New tools, data, and interface for the maize model organism database Author
|Cannon, Ethalinda - Iowa State University|
|Gardiner, Jack - Iowa State University|
|Braun, Bremen - Oak Ridge Institute For Science And Education (ORISE)|
|Vinnakota, Abhinav - Iowa State University|
|Sribalusa, Venktanaga - Iowa State University|
|Huerta, Miranda - Iowa State University|
|Cho, Kyoung Tak - Iowa State University|
|Wimalanathan, Kokulapalan - Iowa State University|
|Richter, Jacqueline - Iowa State University|
|Mauch, Emily - Iowa State University|
|Rao, Bhavani - Iowa State University|
|Birkett, Scott - Iowa State University|
Submitted to: Nucleic Acids Research
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 9/24/2015
Publication Date: 1/4/2016
Citation: Andorf, C.M., Cannon, E., Portwood II, J.L., Gardiner, J.M., Harper, E.C., Schaeffer, M.L., Braun, B.L., Campbell, D.A., Vinnakota, A.G., Sribalusa, V.V., Huerta, M., Cho, K., Wimalanathan, K., Richter, J.D., Mauch, E.D., Rao, B.S., Birkett, S.M., Sen, T.Z., Lawrence, C.J. 2016. MaizeGDB update: New tools, data, and interface for the maize model organism database. Nucleic Acids Research. 44 (D1):D1195-201. doi:10.1093/nar/gkv1007.
Interpretive Summary: Maize is both the number one production crop in the world and a historically important model organism. MaizeGDB is the community database for the maize research community. A maize community database has existed for 25 years but has only two major revisions. The new website redesign for MaizeGDB uses modern web technologies, standards, and practices to create a modern and easy-to-use web interface, provide organization and hierarchy to the growing number of data types available at the site, and develop a robust and scalable back-end infrastructure to manage and support the large-term vision of future data types and analysis tools.
Technical Abstract: MaizeGDB is a highly curated, community-oriented database and informatics service to researchers focused on the crop plant and model organism Zea mays ssp. mays. Although some form of the maize community database has existed over the last 25 years, there have only been two major releases. In 1991, the original maize genetics database MaizeDB was created. In 2003, the combined contents of MaizeDB and the sequence data from ZmDB were made accessible as a single resource named MaizeGDB. Over the next decade, MaizeGDB became more sequence driven while still maintaining traditional maize genetics datasets. This enabled the project to meet the continued growing and evolving needs of the maize research community, yet the interface and underlying infrastructure remained unchanged. In 2015, the MaizeGDB team completed a multi-year effort to update the MaizeGDB resource by reorganizing existing data, upgrading hardware and infrastructure, creating new tools, incorporating new data types (including diversity data, expression data, gene models, and metabolic pathways), and developing and deploying a modern interface. In addition to coordinating a data resource, the MaizeGDB team coordinates activities and provides technical support to the maize research community. MaizeGDB is accessible online at http://www.maizegdb.org.