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Nucleic Acids Research Advance Access originally published online on December 5, 2006
Nucleic Acids Research 2007 35(Database issue):D870-D873; doi:10.1093/nar/gkl998
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Nucleic Acids Research, 2007, Vol. 35, Database issue D870-D873
© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

BASC: an integrated bioinformatics system for Brassica research

Timothy A. Erwin1,2,3, Erica G. Jewell1,2, Christopher G. Love1,2, Geraldine A. C. Lim1,2, Xi Li1,2, Ross Chapman1, Jacqueline Batley1, Jason E. Stajich4, Emmanuel Mongin1,5, Elia Stupka6, Bruce Ross7, German Spangenberg1,2,3 and David Edwards1,2,3,*

1 Plant Biotechnology Centre Victorian AgriBiosciences Centre, 1 Park Drive, Bundoora, Victoria 3083, Australia 2 Victorian Bioinformatics Consortium Victorian AgriBiosciences Centre, 1 Park Drive, Bundoora, Victoria 3083, Australia 3 Australian Centre for Plant Functional Genomics, Primary Industries Research Victoria, Department of Primary Industries Victorian AgriBiosciences Centre, 1 Park Drive, Bundoora, Victoria 3083, Australia 4 University of California, Berkeley CA 94720-3102, USA 5 McGill Centre for Bioinformatics, McGill University Montreal, Quebec, Canada 6 Telethon Institute of Genetics and Medicine Via Pietro Castellino 111, Napoli 80131, Italy 7 IBM Australia 60 City Road, Southbank, Victoria, Australia

*To whom correspondence should be addressed. Tel: +61 3 9479 5633; Fax: +61 3 9479 3618; Email: dave.edwards{at}dpi.vic.gov.au

Received August 14, 2006. Revised October 13, 2006. Accepted October 20, 2006.

The BASC system provides tools for the integrated mining and browsing of genetic, genomic and phenotypic data. This public resource hosts information on Brassica species supporting the Multinational Brassica Genome Sequencing Project, and is based upon five distinct modules, ESTDB, Microarray, MarkerQTL, CMap and EnsEMBL. ESTDB hosts expressed gene sequences and related annotation derived from comparison with GenBank, UniRef and the genome sequence of Arabidopsis. The Microarray module hosts gene expression information related to genes annotated within ESTDB. MarkerQTL is the most complex module and integrates information on genetic markers, maps, individuals, genotypes and traits. Two further modules include an Arabidopsis EnsEMBL genome viewer and the CMap comparative genetic map viewer for the visualization and integration of genetic and genomic data. The database is accessible at http://bioinformatics.pbcbasc.latrobe.edu.au.


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