The Bio-Array Resource for Plant Biology
Welcome to the Bio-Array Resource - the BAR! Below are user-friendly web-based tools for working with functional genomics and other data. Most are designed with the plant (mainly Arabidopsis) reseacher in mind, but a couple of them can be useful to the wider research community, e.g. Mouse eFP Browser or BlastDigester. Click on the 
icon to read the partner paper to a given tool. Mouse-over a given link for further information.
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Gene Expression and Protein Tools• Expression Angler, Poplar Expression Angler |
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| • Sample Angler | ||||||
| • e-Northerns w. Expression Browser, Poplar Expression Browser |
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| • Arabidopsis eFP Browser, Cell eFP Browser | |
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| • Other eFPs: Poplar, M. truncatula, Rice, Barley, Maize, Soybean |
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| • Expressolog Tree Viewer | ||||||
| • Promomer |
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| • Cistome | ||||||
| • Arabidopsis Interactions Viewer | |
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| • Rice Interactions Viewer | ||||||
| • AGURR | ||||||
| • Classification SuperViewer |
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| • _at to AGI converter | ||||||
| • ePlant |
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| • MASTA | ||||||
| • Arabidopsis Translatome eFP Browser Seed Coat eFP Browser | ||||||
| • GeneMANIA | ||||||
Molecular Markers and Mapping Tools• Next Generation Mapping |
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| • MarkerTracker | ||||||
| • BlastDigester |
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| • CapsID |
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Other Genomic Tools• ClustalW with MView Output |
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| • DataMetaFormatter | ||||||
| • Heatmapper | ||||||
| • Heatmapper Plus | ||||||
| • Duplicate Remover | ||||||
| • Venn Selector | ||||||
| • Venn SuperSelector | ||||||
| • Random ID list generator | ||||||
Click the printer icon
for printing tips. Further information on the above tools is available by clicking the Help icon 
on any page. For Arabidopsis queries, the following annotation and lookup tables are used:|
BAR Version 11-05 • Arabidopsis Annotation from TAIR, called TAIR10_pep_20101209, which is merged with Gene Aliases from TAIR, called gene_aliases.20101027. [most recent versions as of 14 Dec 2010] |
| • Arabidopsis GO Classification from TAIR, ATH_GO_GOSLIM.20100105.txt. [Updated January 11, 2010]. |
| • Affymetrix probe set identifier to AGI number lookup table from TAIR dated 29 July 2009. It was called affy_ATH1_array_elements-2009-7-29.txt. [most recent version as of 5 May 2010] |
| • Predicted protein-protein interactions from Dr. Matt Geisler and colleagues at Southern Illinois University. Interactome 2.0 [most recent version as of 10 February 2009] |
| • Literature-documented PPIs from TairProteinInteraction.20090527, and IntAct Arabidopsis Interactions as of 5 May 2010. Another source is associomics.org AMPv3 membrane protein interactome data from the Frommer lab, and Pascal Braun et al.'s Arabidopsis Interactome. |
| • Documented and predicted subcellular localizations from Dr. A. Harvey Millar and colleagues at the University of Western Australia. SUBA2.0 [updated March 2009] |
| • Documented and predicted protein structures in ePlant are respectively from PDB and Dr. Lawrence Kelley at Imperial College, London, in the UK, computed using his Phyre algorithm [updated 19 November 2009] |
| • Poplar annotations and lookup from Chung-Jui Tsai, University of Georgia, AffyAnnotationV3_102707mtu.csv [updated October 2007] |
Maintained by Nicholas J. Provart, last updated 9 December 2011. Visit the Provart Lab website! The BAR is funded in part by Centre for the Analysis of Genome Evolution and Function, grants from the Canada Foundation for Innovation to NJP, and from Genome Canada to the Arabidopsis Research Group at the Department of Cell and Systems Biology, University of Toronto.