The Bio-Array Resource for Plant Functional Genomics

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 PDF icon

icon to read the partner paper to a given tool. Mouse-over a given link for further information.

News

Expression Tools

• Expression Angler, Poplar Expression Angler

• Sample Angler

• e-Northerns w. Expression Browser, Poplar Expression Browser

• Arabidopsis eFP Browser, Cell eFP Browser

• Poplar eFP, Medicago eFP, Rice eFP, Barley eFP

• Promomer

• Cistome Cistome Map

• Arabidopsis Interactions Viewer

• AGURR

• Classification SuperViewer

• _at to AGI converter

• MASTA

• Arabidopsis Translatome eFP Browser

Molecular Markers

• BlastDigester

• MarkerTracker

• CapsID

Other Genomic Tools

• ClustalW with MView Output

• 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:

• Arabidopsis Annotation from TAIR, called TAIR9_pep_20090619, which is merged with Gene Aliases from TAIR, called gene_aliases.20090313. [most recent versions as of 25 June 2009]

• Arabidopsis GO Classification from TAIR, ATH_GO_GOSLIM.20090721.txt. [Updated July 23, 2009].

• 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 12 Nov 2009]

• 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]

• Documented and predicted subcellular localizations from Dr. A. Harvey Millar and colleagues at the University of Western Australia. SUBA2.0 [updated 10 February 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]

Maintained by Nicholas J. Provart, last updated 19 November 2009. 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.