Campus Units

Genetics, Development and Cell Biology, Statistics, Bioinformatics and Computational Biology

Document Type

Article

Publication Version

Published Version

Publication Date

2008

Journal or Book Title

Nucleic Acids Research

Volume

36

Issue

suppl 1

First Page

D959

Last Page

D965

DOI

10.1093/nar/gkm1041

Abstract

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.

Comments

This article is from Nucl. Acids Res. (2008) 36(suppl 1): D959–D965.doi: 10.1093/nar/gkm1041. Posted with permission.

Rights

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Copyright Owner

The Authors

Language

en

File Format

application/pdf

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