Nucleic Acids Research Advance Access originally published online on October 28, 2006
Nucleic Acids Research 2007 35(Database issue):D213-D218; doi:10.1093/nar/gkl863
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Nucleic Acids Research, 2007, Vol. 35, Database issue D213-D218
© 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.
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SUBA: the Arabidopsis Subcellular Database
ARC Centre of Excellence in Plant Energy Biology, School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia 35 Stirling Highway, Crawley 6009, Western Australia, Australia
*To whom correspondence should be addressed. ARC Centre of Excellence in Plant Energy Biology, CMS Building, M316, The University of Western Australia Crawley 6009, Western Australia, Australia. Tel: +61 8 6648 2795; Fax: +61 8 6648 4401; Email: botjlh{at}cyllene.uwa.edu.au
Received August 15, 2006. Revised September 14, 2006. Accepted October 3, 2006.
Knowledge of protein localisation contributes towards our understanding of protein function and of biological inter-relationships. A variety of experimental methods are currently being used to produce localisation data that need to be made accessible in an integrated manner. Chimeric fluorescent fusion proteins have been used to define subcellular localisations with at least 1100 related experiments completed in Arabidopsis. More recently, many studies have employed mass spectrometry to undertake proteomic surveys of subcellular components in Arabidopsis yielding localisation information for 
2600 proteins. Further protein localisation information may be obtained from other literature references to analysis of locations (AmiGO: 900 proteins), location information from Swiss-Prot annotations (2000 proteins); and location inferred from gene descriptions (2700 proteins). Additionally, an increasing volume of available software provides location prediction information for proteins based on amino acid sequence. We have undertaken to bring these various data sources together to build SUBA, a SUBcellular location database for Arabidopsis proteins. The localisation data in SUBA encompasses 10 distinct subcellular locations, >6743 non-redundant proteins and represents the proteins encoded in the transcripts responsible for 51% of Arabidopsis expressed sequence tags. The SUBA database provides a powerful means by which to assess protein subcellular localisation in Arabidopsis (http://www.suba.bcs.uwa.edu.au).
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