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Bioinformatics Advance Access published online on March 17, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp153
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© The Author (2009). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

DASher: a stand alone protein sequence client for DAS, the Distributed Annotation System

David N. Messina 1 and Erik L. L. Sonnhammer 1,*

1Stockholm Bioinformatics Centre, Stockholm University, 10691 Stockholm, Sweden

*To whom correspondence should be addressed. Erik L. L. Sonnhammer, E-mail: Erik.Sonnhammer{at}sbc.su.se


  Abstract

Summary: The rise in biological sequence data has led to a proliferation of separate, specialized databases. While there is great value in having many independent annotations, it is critical that there be a way to integrate them in one combined view. The Distributed Annotation System (DAS) was developed for that very purpose.

There are currently no DAS clients that are open-source, specialized for aggregating and comparing protein sequence annotation, and that can run as a self-contained application outside of a web browser. The speed, flexibility, and extensibility that come with a stand-alone application motivated us to create DASher, an open source Java DAS client. Given a UniProt sequence identifier, DASher automatically queries DAS supporting servers worldwide for any information on that sequence and then displays the annotations in an interactive viewer for easy comparison.

DASher is a fast, Java-based DAS client optimized for viewing protein sequence annotation and compliant with the latest DAS protocol specification 1.53E.

Availability: DASher is available for direct use and download at http://dasher.sbc.su.se including examples and source code under the GPLv3 licence. Java version 6 or higher is required

Contact: Erik.Sonnhammer{at}sbc.su.se

Associate Editor: Prof. Dmitrij Frishman

Received on November 10, 2008; revised on February 26, 2009; accepted on March 14, 2009

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