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BRAD V3. 0：一个升级的芸薹属数据库。

BRAD V3.0: an upgraded Brassicaceae database.

机构信息

Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, No.12, Haidian District, Beijing 100081, China.

Southern Cross Plant Science, Southern Cross University, Lismore, New South Wales, Australia.

出版信息

Nucleic Acids Res. 2022 Jan 7;50(D1):D1432-D1441. doi: 10.1093/nar/gkab1057.

DOI:10.1093/nar/gkab1057
PMID:34755871
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8728314/
Abstract

The Brassicaceae Database (BRAD version 3.0, BRAD V3.0; http://brassicadb.cn) has evolved from the former Brassica Database (BRAD V2.0), and represents an important community portal hosting genome information for multiple Brassica and related Brassicaceae plant species. Since the last update in 2015, the complex genomes of numerous Brassicaceae species have been decoded, accompanied by many omics datasets. To provide an up-to-date service, we report here a major upgrade of the portal. The Model-View-ViewModel (MVVM) framework of BRAD has been re-engineered to enable easy and sustainable maintenance of the database. The collection of genomes has been increased to 26 species, along with optimization of the user interface. Features of the previous version have been retained, with additional new tools for exploring syntenic genes, gene expression and variation data. In the 'Syntenic Gene @ Subgenome' module, we added features to view the sequence alignment and phylogenetic relationships of syntenic genes. New modules include 'MicroSynteny' for viewing synteny of selected fragment pairs, and 'Polymorph' for retrieval of variation data. The updated BRAD provides a substantial expansion of genomic data and a comprehensive improvement of the service available to the Brassicaceae research community.

摘要

芸薹属数据库（BRAD 版本 3.0，BRAD V3.0；http://brassicadb.cn）由前芸薹属数据库（BRAD V2.0）发展而来，是一个重要的社区门户，为多个芸薹属和相关芸薹科植物物种提供基因组信息。自 2015 年最后一次更新以来，许多芸薹科物种的复杂基因组已被破译，并伴随着大量的组学数据集。为了提供最新的服务，我们在此报告该门户的重大升级。BRAD 的模型-视图-视图模型 (MVVM) 框架已重新设计，以实现数据库的轻松和可持续维护。基因组集合已增加到 26 个物种，并优化了用户界面。保留了上一版本的功能，并增加了新的工具，用于探索基因的共线性、基因表达和变异数据。在“亚基因组的共线性基因 @”模块中，我们添加了功能来查看共线性基因的序列比对和系统发育关系。新模块包括用于查看所选片段对的共线性的“MicroSynteny”，以及用于检索变异数据的“Polymorph”。更新后的 BRAD 提供了基因组数据的大幅扩展，并全面改善了芸薹科研究界的服务。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/1dca288c2fbb/gkab1057fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/000c83f14365/gkab1057fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/9678c3091104/gkab1057fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/14ad69758192/gkab1057fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/6ffc000a0dfb/gkab1057fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/1dca288c2fbb/gkab1057fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/000c83f14365/gkab1057fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/9678c3091104/gkab1057fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/14ad69758192/gkab1057fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/6ffc000a0dfb/gkab1057fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4705/8728314/1dca288c2fbb/gkab1057fig5.jpg

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