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Bioinformatics Advance Access published online on September 6, 2005
Bioinformatics, 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@oxfordjournals.org
Received June 8, 2005
Revised July 27, 2005
Accepted August 30, 2005

Review

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 9, Jürgen Rockstroh 10, Bernd Kupfer 11, Rolf Kaiser 12, and Martin Däumer 12

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


  Abstract

Motivation: 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.


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