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Bioinformatics Advance Access published online on October 10, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl503
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© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received August 24, 2006
Revised September 28, 2006
Accepted September 30, 2006

Applications note

ChromoScan: a scan statistic application for identifying chromosomal regions in genomic studies

Yan V. Sun 1 *, Douglas M. Jacobsen 1, and Sharon L. R. Kardia 1

1 Department of Epidemiology, School of Public Health, University of Michigan, Ann Arbor, MI 48104-3028, USA

* To whom correspondence should be addressed.
Yan V. Sun, E-mail: yansun{at}umich.edu


  Abstract

Summary: ChromoScan is an implementation of a genome-based scan statistic that detects genomic regions which are statistically significant for targeted measurements such as genetic associations with disease, gene expression profiles, DNA copy number variations, as well as other genome based measurements. A Java graphic user interface (GUI) is provided to allow users to select appropriate data transformations and thresholds for defining the significant events.

Availability: ChromoScan is freely available from http://www.epidkardia.sph.umich.edu/software/chromoscan/.

Associate Editor: Keith A Crandall
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