Gramene: a growing plant comparative genomics resource

被引：120

作者：

Liang, Chengzhi ^{[1
]}

Jaiswal, Pankaj ^{[2
]}

Hebbard, Claire ^{[2
]}

Avraham, Shuly ^{[1
]}

Buckler, Edward S. ^{[3
,4
]}

Casstevens, Terry ^{[3
]}

Hurwitz, Bonnie ^{[1
]}

McCouch, Susan ^{[2
]}

Ni, Junjian ^{[2
]}

Pujar, Anuradha ^{[2
]}

Ravenscroft, Dean ^{[2
]}

Ren, Liya ^{[1
]}

Spooner, William ^{[1
]}

Tecle, Isaak ^{[2
]}

Thomason, Jim ^{[1
]}

Tung, Chih-wei ^{[2
]}

Wei, Xuehong ^{[1
]}

Yap, Immanuel ^{[2
]}

Youens-Clark, Ken ^{[1
]}

Ware, Doreen ^{[1
,4
]}

Stein, Lincoln ^{[1
]}

机构：

[1] Cold Spring Harbor Lab, Cold Spring Harbor, NY 11724 USA

[2] Cornell Univ, Dept Genet & Plant Breeding, Ithaca, NY 14853 USA

[3] Cornell Univ, Inst Genom Divers, Ithaca, NY 14853 USA

[4] Cornell Univ, USDA ARS, NAA Plant Soil & Nutr Lab Res Unit, Ithaca, NY 14853 USA

来源：

NUCLEIC ACIDS RESEARCH | 2008年 / 36卷

基金：

美国国家科学基金会;

关键词：

D O I：

10.1093/nar/gkm968

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Gramene (www.gramene.org) is a curated resource for genetic, genomic and comparative genomics data for the major crop species, including rice, maize, wheat and many other plant (mainly grass) species. Gramene is an open-source project. All data and software are freely downloadable through the ftp site (ftp.gramene.org/pub/gramene) and available for use without restriction. Gramenes core data types include genome assembly and annotations, other DNA/mRNA sequences, genetic and physical maps/markers, genes, quantitative trait loci (QTLs), proteins, ontologies, literature and comparative mappings. Since our last NAR publication 2 years ago, we have updated these data types to include new datasets and new connections among them. Completely new features include rice pathways for functional annotation of rice genes; genetic diversity data from rice, maize and wheat to show genetic variations among different germplasms; large-scale genome comparisons among Oryza sativa and its wild relatives for evolutionary studies; and the creation of orthologous gene sets and phylogenetic trees among rice, Arabidopsis thaliana, maize, poplar and several animal species (for reference purpose). We have significantly improved the web interface in order to provide a more user-friendly browsing experience, including a dropdown navigation menu system, unified web page for markers, genes, QTLs and proteins, and enhanced quick search functions.

引用

页码：D947 / D953

页数：7

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