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Bioinformatics Advance Access published online on January 17, 2008
Bioinformatics, doi:10.1093/bioinformatics/btm597
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© 2008 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.

The SGN Comparative Map Viewer

Lukas Mueller 1,*, Adri Mills 1, Beth Skwarecki 1, Robert Buels 1, Naama Menda 1 and Steven Tanksley 1

1Department of Plant Breeding and Genetics, Cornell University, Ithaca NY 14853, USA

*To whom correspondence should be addressed. Dr. Lukas Mueller, E-mail: 1am87{at}cornell.edu


  Abstract

Motivation: With the rapid accumulation of genetic data for a multitude of different species, the availability of intuitive comparative genomics tools becomes an important requirement for the research community. Here we describe a web-based comparative viewer for mapping data, including genetic, physical, and cytological maps, that is part of the SGN website (http://sgn.cornell.edu/) but that can also be installed and adapted for other websites. In addition to viewing and comparing different maps stored in the SGN database, the viewer allows users to upload their own maps and compare them to other maps in the system. The viewer is implemented in object oriented Perl, with a simple extensible interface to write data adapters for other relational database schemas and flat file formats.

Associate Editor: Dr. Alex Bateman

Received on October 19, 2007; revised on November 17, 2007; accepted on November 27, 2007

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