The Bio-Analytic Resource for Plant Biology
Welcome to the Bio-Analytic 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.
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 12-09|
• Arabidopsis Annotation from TAIR, called TAIR10_pep_20101209, which is merged with Gene Aliases from TAIR, called gene_aliases.20120207.txt. [most recent versions as of 21 September 2012]
|• Arabidopsis GO Classification from TAIR, ATH_GO_GOSLIM.20120925.txt. [most recent version as of September 25, 2012]. |
|• Affymetrix probe set identifier to AGI number lookup table from TAIR dated 20 December 2010. It was called affy_ATH1_array_elements-2010-12-20.txt. [most recent version as of 21 September 2012]|
|• 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 21 September 2012. 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.