Submitted to: Nucleic Acids Research
Publication Type: Peer reviewed journal
Publication Acceptance Date: 10/26/2001
Publication Date: 1/1/2002
Citation: WARE, D., JAISWAL, P., CHANG, K., CLARK, K., TEYTELMAN, L., SCHMIDT, S., ZHAO, W., CARTINHOUR, S.W., MCCOUCH, S., STEIN, L. GRAMENE: A RESOURCE FOR COMPARATIVE GRASS GENOMICS. NUCLEIC ACIDS RESEARCH. 2002. v. 30(1). p. 103-105. Interpretive Summary: Gramene is a new publicly available database that integrates biological data from crops in the grass family. The database uses the rice genomic sequence as a framework through which to organize and relate data from other species. This allows researchers to take advantage of the similarities between the grasses and leverage what is known in one species to help understand agronomically important phenomena in others. Gramene replaces RiceGenes, a database with similar goals but with less sophisticated underlying software, user interface features and data content. Gramene is available at http//www.grameme.org/.
Technical Abstract: Gramene (http//www.gramene.org) is a comparative genome mapping database for grasses and a community resource for rice. Rice, in addition to being an economically important crop, is also a model monocot for understanding other agronomically important grass genomes. Gramene replaces the existing AceDB database 'RiceGenes' with a relational database based on Oracle. Gramene provides curated and integrative information about maps, sequence, genes, genetic markers, mutants, QTLs, controlled vocabularies and publications. Its aims are to use the rice genetic, physical and sequence maps as fundamental organizing units, to provide a common denominator for moving from one crop grass to another and is to serve as a portal for interconnecting with other web-based crop grass resources. This paper describes the initial steps we have taken towards realizing these goals.