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Gramene database in 2010: updates and extensions.

TitleGramene database in 2010: updates and extensions.
Publication TypeJournal Article
Year of Publication2011
AuthorsYouens-Clark, K, Buckler E, Casstevens T, Chen C, Declerck G, Derwent P, Dharmawardhana P, Jaiswal P, Kersey P, Karthikeyan AS, Lu J, McCouch SR, Ren L, Spooner W, Stein JC, Thomason J, Wei S, Ware D
JournalNucleic acids research
Volume39
IssueDatabase issue
PaginationD1085-94
Date Published2011 Jan
ISSN1362-4962
KeywordsChromosome Mapping, Databases, Genetic, Genes, Plant, Genetic Variation, Genome, Plant, Genomics, Metabolic Networks and Pathways, Plants, Quantitative Trait Loci, Synteny
Abstract

Now in its 10th year, the Gramene database (http://www.gramene.org) has grown from its primary focus on rice, the first fully-sequenced grass genome, to become a resource for major model and crop plants including Arabidopsis, Brachypodium, maize, sorghum, poplar and grape in addition to several species of rice. Gramene began with the addition of an Ensembl genome browser and has expanded in the last decade to become a robust resource for plant genomics hosting a wide array of data sets including quantitative trait loci (QTL), metabolic pathways, genetic diversity, genes, proteins, germplasm, literature, ontologies and a fully-structured markers and sequences database integrated with genome browsers and maps from various published studies (genetic, physical, bin, etc.). In addition, Gramene now hosts a variety of web services including a Distributed Annotation Server (DAS), BLAST and a public MySQL database. Twice a year, Gramene releases a major build of the database and makes interim releases to correct errors or to make important updates to software and/or data.

Alternate JournalNucleic Acids Res.