Springer Protocols: Abstract: BGI-RIS V2: Rice Information System at the Beijing Genomics Institute

BGI-RIS V2: Rice Information System at the Beijing Genomics Institute

By: Ximiao He², Jun Wang²

Abstract

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Rice serves as both a staple for over half of the world’s population and a model organism for plants of the grass family. Beijing Genomics Institute (BGI) has long been engaged in rice genomic research: sequencing, assembly, information analysis and integration. Such intensive research results in public releases and biological applications. In order to facilitate obtaining and operating on the rice genomic data, as well as to provide a genomic groundwork for comparative, functional or evolutionary research on important cereal crops, BGI has established and updated the Rice Information System (BGI-RIS V2), an integrated information resource and comparative analysis workbench for rice genomes. BGI-RIS V2 offers not only genomic sequences, which combine the genomic data of Oryza sativa L. ssp. indica (by BGI) with Oryza sativa L. ssp. japonica, but also most detailed annotation data, including genetic markers, Bacterial Artificial Chromosome (BAC) end sequences, gene contents, cDNAs, oligos, tiling arrays, repetitive elements, and genomic polymorphisms. As a basic platform, BGI-RIS V2 also offers graphical interfaces and a series of tools and services for gene finding, genomic alignment and genomic assembly. This database is available through the web server (http://rise.genomics.org.cn or http://rice.genomics.org.cn) and the File Transfer Protocol (FTP) server (ftp://ftp.genomics.org.cn/pub/database/rice).

Affiliation(s): (2) Beijing Genomics Institute, Chinese Academy of Sciences, Beijing, China

Book Title: Plant Bioinformatics: Methods and Protocols

Series: Methods in Molecular Biology | Volume: 406 | Pub. Date: Dec-01-2007 | Page Range: 275-299 | DOI: 10.1007/978-1-59745-535-0_13

Subject: Plant Sciences

Key Words: Rice - cereal crops - genome - comparative genomics - database - information system.

References

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