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Bioinformatics Advance Access published online on June 19, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp381
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© 2009 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.

FancyGene: dynamic visualization of gene structures and protein domain architectures on genomic loci.

Davide Rambaldi 1 and Francesca D. Ciccarelli 1,*

1 Department of Experimental Oncology, European Institute of Oncology, IFOM-IEO Campus, Via Adamello 16, 20139 Milan, Italy.

*To whom correspondence should be addressed. Dr. Francesca Ciccarelli, E-mail: francesca.ciccarelli{at}ifom-ieo-campus.it


  Abstract

Summary: : FancyGene is a fast and user-friendly web-based tool for producing images of one or more genes directly on the corresponding genomic locus. Starting from a variety of input formats, FancyGene rebuilds the basic components of a gene (UTRs, intron, exons). Once the initial representation is obtained, the user can superimpose additional features - such as protein domains and/or a variety of biological markers -in specific positions. FancyGene is extremely flexible allowing the user to change the resulting image dynamically, modifying colors and shapes and adding and/or removing objects. The output images are generated either in PNG or PDF formats and can be used for scientific presentations as well as for publications. The PDF format preserves editing capabilities, allowing picture modification using any vector graphics editor.

Availability: http://bio.ifom-ieo-campus.it/fancygene,

Contact:francesca.ciccarelli{at}ifom-ieo-campus.it.

Supplementary Information: Details, examples and tutorials can be found at http://bio.ifom-ieo-campus.it/fancygene/tutorial.html and http://bio.ifom-ieo-campus.it/fancygene/help.html

Associate Editor: Prof. John Quackenbush

Received on March 17, 2009; revised on June 9, 2009; accepted on June 16, 2009

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