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Bioinformatics Advance Access first published online on May 26, 2006
This version published online on June 1, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl269
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© 2006 The Author(s)
Received February 21, 2006
Revised April 24, 2006
Accepted May 19, 2006

Applications note

ACE-it: a tool for genome-wide integration of gene dosage and RNA expression data

Wessel N. van Wieringen 1, Jeroen A. M. Belien 2, Sjoerd J. Vosse 1, Eskeatnaf M. Achame 2, and Bauke Ylstra 2 *

1 Department of Mathematics, Vrije Universiteit, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
2 Department of Pathology, VU Medical Center, PO Box 7057, 1007 MB, Amsterdam, The Netherlands

* To whom correspondence should be addressed.
Bauke Ylstra, E-mail: b.ylstra{at}vumc.nl


  Abstract

Summary: We describe a tool, called ACE-it (Array CGH Expression integration tool). ACE-it links the chromosomal position of the gene dosage measured by array CGH to the genes measured by the expression array. ACE-it uses this link to statistically test whether gene dosage affects RNA expression.

Availability: ACE is freely available at http://ibivu.cs.vu.nl/programs/acewww/.

Supplementary information: Programs, the manual and supplementary information are available on the website.

Associate Editor: Martin Bishop
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W. N. Van Wieringen, M. A. Van De Wiel, and B. Ylstra
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