PlantGDB: a resource for comparative plant genomics

被引：184

作者：

Duvick, Jon ^{[1
]}

Fu, Ann ^{[1
]}

Muppirala, Usha ^{[1
]}

Sabharwal, Mukul ^{[1
]}

Wilkerson, Matthew D. ^{[1
]}

Lawrence, Carolyn J. ^{[4
]}

Lushbough, Carol ^{[3
]}

Brendel, Volker ^{[1
,2
]}

机构：

[1] Iowa State Univ, Dept Genet Dev & Cell Biol, Ames, IA 50011 USA

[2] Iowa State Univ, Dept Stat, Ames, IA 50011 USA

[3] Univ S Dakota, Dept Comp Sci, Vermillion, SD 57069 USA

[4] USDA ARS, Corn Insects & Crop Genet Res Unit, Ames, IA 50011 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/gkm1041

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：

PlantGDB (http://www.plantgdb.org/) is a genomics database encompassing sequence data for green plants (Viridiplantae). PlantGDB provides annotated transcript assemblies for >100 plant species, with transcripts mapped to their cognate genomic context where available, integrated with a variety of sequence analysis tools and web services. For 14 plant species with emerging or complete genome sequence, PlantGDB's genome browsers (xGDB) serve as a graphical interface for viewing, evaluating and annotating transcript and protein alignments to chromosome or bacterial artificial chromosome (BAC)-based genome assemblies. Annotation is facilitated by the integrated yrGATE module for community curation of gene models. Novel web services at PlantGDB include Tracembler, an iterative alignment tool that generates contigs from GenBank trace file data and BioExtract Server, a web-based server for executing custom sequence analysis workflows. PlantGDB also hosts a plant genomics research outreach portal (PGROP) that facilitates access to a large number of resources for research and training.

引用

页码：D959 / D965

页数：7

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