BarleyBase - an expression profiling database for plant genornics
BarleyBase - an expression profiling database for plant genornics
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DOI：
10.1093/nar/gki123
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发表时间：
2005-01-01
影响因子：
14.9
通讯作者：
Dickerson, JA
中科院分区：
文献类型：
--
作者：
Shen, LH;Gong, J;Dickerson, JA
Barley Base(BB)(www.barley base.org)是一个植物微阵列的在线数据库，具有用于数据可视化和统计分析的集成工具。BB存储了来自两个公开可用的Affymetrix基因组阵列Barley 1和Arabiopsis ATH1的原始和标准化表达数据，并计划在新的Affymetrix 61K小麦、玉米、大豆和水稻阵列上市时将其包括在内。113113包含所有数据级别的广泛查询和显示选项，范围从实验到单个杂交，再到探针组，再到单个探针。用户可以基于观察到的表达简档和/或基于已知的生物信息对探针组执行交叉实验查询。探测集查询与可视化和分析工具集成在一起，如R统计工具箱、数据过滤器和各种曲线图类型。基因和植物本体的受控词汇，以及到PlantGDB、Gramene和GrainGenes中物理或遗传图谱和其他基因组数据的互连链接，允许用户使用Barley 1样本序列进行EST比对和基因功能预测，从而增强跨物种比较。
BarleyBase (BB) (www.barleybase.org) is an online database for plant microarrays with integrated tools for data visualization and statistical analysis. BB houses raw and normalized expression data from the two publicly available Affymetrix genome arrays, Barley1 and Arabidopsis ATH1 with plans to include the new Affymetrix 61K wheat, maize, soybean and rice arrays, as they become available. 113113 contains a broad set of query and display options at all data levels, ranging from experiments to individual hybridizations to probe sets down to individual probes. Users can perform cross-experiment queries on probe sets based on observed expression profiles and/or based on known biological information. Probe set queries are integrated with visualization and analysis tools such as the R statistical toolbox, data filters and a large variety of plot types. Controlled vocabularies for gene and plant ontologies, as well as interconnecting links to physical or genetic map and other genomic data in PlantGDB, Gramene and GrainGenes, allow users to perform EST alignments and gene function prediction using Barley1 exemplar sequences, thus, enhancing cross-species comparison.