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User Guidelines for the Brassica Database: BRAD

  • Xiaobo Wang
  • Feng Cheng
  • Xiaowu WangEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 1374)

Abstract

The genome sequence of Brassica rapa was first released in 2011. Since then, further Brassica genomes have been sequenced or are undergoing sequencing. It is therefore necessary to develop tools that help users to mine information from genomic data efficiently. This will greatly aid scientific exploration and breeding application, especially for those with low levels of bioinformatic training. Therefore, the Brassica database (BRAD) was built to collect, integrate, illustrate, and visualize Brassica genomic datasets. BRAD provides useful searching and data mining tools, and facilitates the search of gene annotation datasets, syntenic or non-syntenic orthologs, and flanking regions of functional genomic elements. It also includes genome-analysis tools such as BLAST and GBrowse. One of the important aims of BRAD is to build a bridge between Brassica crop genomes with the genome of the model species Arabidopsis thaliana, thus transferring the bulk of A. thaliana gene study information for use with newly sequenced Brassica crops.

Key words

BRAD Brassica database Genome sequences Genomic syntenic Comparative genomics Brassicaceae Brassica crop 

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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  1. 1.Institute of Vegetables and FlowersChinese Academy of Agricultural SciencesBeijingChina

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