title: Gramene database in 2010: updates and extensions.
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.
authors.affiliation: Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA. kclark@cshl.edu
authors.forename: Ken
authors.initials: K
authors.lastname: Youens-Clark
authors.forename: Ed
authors.initials: E
authors.lastname: Buckler
authors.forename: Terry
authors.initials: T
authors.lastname: Casstevens
authors.forename: Charles
authors.initials: C
authors.lastname: Chen
authors.forename: Genevieve
authors.initials: G
authors.lastname: Declerck
authors.forename: Paul
authors.initials: P
authors.lastname: Derwent
authors.forename: Palitha
authors.initials: P
authors.lastname: Dharmawardhana
authors.forename: Pankaj
authors.initials: P
authors.lastname: Jaiswal
authors.forename: Paul
authors.initials: P
authors.lastname: Kersey
authors.forename: A S
authors.initials: AS
authors.lastname: Karthikeyan
authors.forename: Jerry
authors.initials: J
authors.lastname: Lu
authors.forename: Susan R
authors.initials: SR
authors.lastname: McCouch
authors.forename: Liya
authors.initials: L
authors.lastname: Ren
authors.forename: William
authors.initials: W
authors.lastname: Spooner
authors.forename: Joshua C
authors.initials: JC
authors.lastname: Stein
authors.forename: Jim
authors.initials: J
authors.lastname: Thomason
authors.forename: Sharon
authors.initials: S
authors.lastname: Wei
authors.forename: Doreen
authors.initials: D
authors.lastname: Ware
mesh_terms: D002874:Chromosome Mapping; D030541:Databases, Genetic; D017343:Genes, Plant; D014644:Genetic Variation; D018745:Genome, Plant; D023281:Genomics; D053858:Metabolic Networks and Pathways; D010944:Plants / Q000235:genetics* / Q000378:metabolism; D040641:Quantitative Trait Loci; D026801:Synteny