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Bioinformatics Advance Access originally published online on October 2, 2006
Bioinformatics 2007 23(2):259-261; doi:10.1093/bioinformatics/btl496
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© 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.

Sungear: interactive visualization and functional analysis of genomic datasets

Christopher S. Poultney 1, Rodrigo A. Gutiérrez 2,3, Manpreet S. Katari 2, Miriam L. Gifford 2, W. Bradford Paley 4, Gloria M. Coruzzi 2 and Dennis E. Shasha 1,*

1 Courant Institute of Mathematical Sciences, New York University NY, USA
2 Department of Biology, New York University NY, USA
3 Departamento de Genética Molecular y Microbiología, P. Universidad Católica de Chile Santiago, Chile
4 Digital Image Design Incorporated NY, USA

*To whom correspondence should be addressed.


  Abstract

Summary: Sungear is a software system that supports a rapid, visually interactive and biologist-driven comparison of large datasets. The datasets can come from microarray experiments (e.g. genes induced in each experiment), from comparative genomics (e.g. genes present in each genome) or even from non-biological applications (e.g. demographics or baseball statistics). Sungear represents multiple datasets as vertices in a polygon. Each possible intersection among the sets is represented as a circle inside the polygon. The position of the circle is determined by the position of the vertices represented in the intersection and the area of the circle is determined by the number of elements in the intersection. Sungear shows which Gene Ontology terms are over-represented in a subset of circles or anchors. The intuitive Sungear interface has enabled biologists to determine quickly which dataset or groups of datasets play a role in a biological function of interest.

Availability: A live online version of Sungear can be found at http://virtualplant-prod.bio.nyu.edu/cgi-bin/sungear/index.cgi

Contact: shasha{at}cs.nyu.edu

Supplementary information: Submitted—link TBD.

Associate Editor: Thomas Lengauer

Received on May 5, 2006; revised on August 8, 2006; accepted on September 20, 2006

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