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Research Project: Gene Discovery and Crop Design for Current and New Rice Management Practices and Market Opportunities

Location: Dale Bumpers National Rice Research Center

Title: Ricebase update: comparative GWAS annotation for gene discovery and marker development.

item Edwards, Jeremy
item Jackson, Aaron
item Jia, Melissa
item Eizenga, Georgia

Submitted to: Rice Technical Working Group Meeting Proceedings
Publication Type: Proceedings
Publication Acceptance Date: 12/4/2019
Publication Date: 1/6/2021
Citation: Edwards, J., Jackson, A.K., Jia, M.H., Eizenga, G.C. 2021. Ricebase update: comparative GWAS annotation for gene discovery and marker development. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 79. Electronic Publication.

Interpretive Summary:

Technical Abstract: Ricebase, an integrative genomic database for rice, bridges the gap between the “big data” of rice genomics and the practical needs of rice breeders and researchers. There are vast rice genomic data sets and many published genotype-phenotype associations available to employ toward new genetic discovery and the development of marker assisted selection (MAS) tools. However, the volume and complexity of the data are obstacles that restrict one from making full use of these information resources. Finding and combining information from diverse sources for simultaneous evaluation is challenging because of varying data structures and a lack of a common coordinate system to facilitate comparison. Ricebase overcomes the information overload by curating and structuring information that is particularly relevant to rice breeding from multiple sources using a well-structured database schema and a common coordinate system based on the reference genome assembly.