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Bioinformatics Advance Access originally published online on September 6, 2005
Bioinformatics 2005 21(21):3943-3950; doi:10.1093/bioinformatics/bti654
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oxfordjournals.org
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Computational methods for the design of effective therapies against drug resistant HIV strains

Niko Beerenwinkel 1,*, Tobias Sing 2, Thomas Lengauer 2, Jörg Rahnenführer 2, Kirsten Roomp 2, Igor Savenkov 2, Roman Fischer 3, Daniel Hoffmann 3, Joachim Selbig 4, Klaus Korn 5, Hauke Walter 5, Thomas Berg 6, Patrick Braun 7, Gerd Fätkenheuer 8, Mark Oette 10, Jürgen Rockstroh 11, Bernd Kupfer 12, Rolf Kaiser 9 and Martin Däumer 9

1Department of Mathematics, University of California Berkeley, CA, USA
2Max Planck Institute for Informatics Saarbrücken, Germany
3Center of Advanced European Studies and Research Bonn, Germany
4Max Planck Institute of Molecular Plant Physiology and University of Potsdam Germany
5Institute of Clinical and Molecular Virology, University of Erlangen-Nürnberg Erlangen, Germany
6Medical Laboratory Berlin, Germany
7PZB Aachen, Germany
8Department of Internal Medicine, University of Cologne Germany
9Institute of Virology, University of Cologne Germany
10Department of Gastroenterology, University of Düsseldorf Germany
11Department of Internal Medicine, University of Bonn Germany
12Institute of Medical Microbiology and Immunology, University of Bonn Germany

*To whom correspondence should be addressed.

Summary: The development of drug resistance is a major obstacle to successful treatment of HIV infection. The extraordinary replication dynamics of HIV facilitates its escape from selective pressure exerted by the human immune system and by combination drug therapy. We have developed several computational methods whose combined use can support the design of optimal antiretroviral therapies based on viral genomic data.

Contact: niko{at}math.berkeley.edu

Received on June 8, 2005; revised on July 27, 2005; accepted on August 30, 2005

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