Genome Resource Unit, Agrogenomics Research Center, National Institute of Agrobiological Sciences, Kannondai 2-1-2, Tsukuba, Ibaraki 305-8602, Japan.
Nucleic Acids Res. 2013 Jan;41(Database issue):D1206-13. doi: 10.1093/nar/gks1125. Epub 2012 Nov 23.
A wide range of resources on gene expression profiling enhance various strategies in plant molecular biology particularly in characterization of gene function. We have updated our gene expression profile database, RiceXPro (http://ricexpro.dna.affrc.go.jp/), to provide more comprehensive information on the transcriptome of rice encompassing the entire growth cycle and various experimental conditions. The gene expression profiles are currently grouped into three categories, namely, 'field/development' with 572 data corresponding to 12 data sets, 'plant hormone' with 143 data corresponding to 13 data sets and 'cell- and tissue-type' comprising of 38 microarray data. In addition to the interface for retrieving expression information of a gene/genes in each data set, we have incorporated an interface for a global approach in searching an overall view of the gene expression profiles from multiple data sets within each category. Furthermore, we have also added a BLAST search function that enables users to explore expression profile of a gene/genes with similarity to a query sequence. Therefore, the updated version of RiceXPro can be used more efficiently to survey the gene expression signature of rice in sufficient depth and may also provide clues on gene function of other cereal crops.
大量的基因表达谱资源增强了植物分子生物学中的各种策略，特别是在基因功能的表征方面。我们更新了我们的基因表达谱数据库 RiceXPro（http://ricexpro.dna.affrc.go.jp/），以提供更全面的水稻转录组信息，涵盖整个生长周期和各种实验条件。基因表达谱目前分为三类，即“田间/发育”，有 572 个数据对应 12 个数据集；“植物激素”，有 143 个数据对应 13 个数据集；“细胞和组织类型”，包括 38 个微阵列数据。除了检索每个数据集中基因/基因表达信息的界面外，我们还在每个类别中加入了一个从多个数据集中搜索基因表达谱全局视图的界面。此外，我们还添加了 BLAST 搜索功能，使用户能够用相似的查询序列探索基因/基因的表达谱。因此，更新后的 RiceXPro 可以更有效地用于充分深入地调查水稻的基因表达特征，也可能为其他谷类作物的基因功能提供线索。
