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Database Commons - BB

BB

Citations: 101

z-index 0.47

Short name BB
Full name BarleyBase
Description BarleyBase (BB) is an online database for plant microarrays with integrated tools for data visualization and statistical analysis.
URL http://www.barleybase.org
Year founded 2004
Last update & version 2013-06-01    
Availability Free to academic users only
University/Institution hosted Iowa State University
Address Ames, IA 50011, USA
City Ames
Province/State IA
Country/Region United States
Contact name Lishuang Shen
Contact email julied@iastate.edu
Data type(s)
Major organism(s)
Keyword(s)
  • plant microarray
Publication(s)
  • BarleyBase--an expression profiling database for plant genomics. [PMID: 15608273]

    Lishuang Shen, Jian Gong, Rico A Caldo, Dan Nettleton, Dianne Cook, Roger P Wise, Julie A Dickerson
    Nucleic acids research 2005:33(Database issue)
    101 Citations (Google Scholar as of 2016-03-02)

    Abstract: 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. BB 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.

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Tags

DNA Expression
Barley
plant microarray

Record metadata

  • Created on: 2015-07-14
  • Curated by:
    • Lina Ma [2016-08-26]
    • Mengwei Li [2016-03-31]
    • Lina Ma [2015-12-31]
    • Mengwei Li [2015-11-29]
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