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MPI-INF D3 Publications, generated: 18:20, 20 September 2019

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Your search returned the following 42 documents:

  1. André Altmann, Martin Däumer, Niko Beerenwinkel, Yardena Peres, Eugen Schülter, Joachim Büch, Soo-Yon Rhee, Anders Sönnerborg, W. Jeffrey Fessel, Robert W. Shafer, Maurizio Zazzi, Rolf Kaiser, and Thomas Lengauer
    Predicting the Response to Combination Antiretroviral Therapy: Retrospective Validation of geno2pheno-THEO on a Large Clinical Database
    The Journal of Infectious Diseases 199 (7): 999-1006, 2009
  2. Ralf Ketter, Steffi Urbschat, Wolfram Henn, Wolfgang Feiden, Niko Beerenwinkel, Thomas Lengauer, Wolf-Ingo Steudel, Klaus D. Zang, and Jörg Rahnenführer
    Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas
    International Journal of Cancer 121 (7): 1473-1480, 2007
  3. Andre Altmann, Niko Beerenwinkel, Tobias Sing, Igor Savenkov, Martin Däumer, Rolf Kaiser, Soo-Yon Rhee, W Jeffrey Fessel, Robert W Shafer, and Thomas Lengauer
    Improved prediction of response to antiretroviral combination therapy using the genetic barrier to drug resistance
    Antiviral Therapy 12 (2): 169-178, 2007
  4. Tobias Sing and Niko Beerenwinkel
    Mutagenetic tree Fisher kernel improves prediction of HIV drug resistance from viral genotype
    In: Advances in Neural Information Processing Systems 19, Vancouver, B.C., Canada, 2007, 1-9
    [PDF: Download: SingNIPS2006.pdf]
  5. Tobias Sing, Andrew J. Low, Niko Beerenwinkel, Oliver Sander, Peter K. Cheung, Francisco S. Domingues, Joachim Büch, Martin Däumer, Rolf Kaiser, Thomas Lengauer, and P. Richard Harrigan
    Predicting HIV coreceptor usage on the basis of genetic and clinical covariates
    Antiviral Therapy 12 (7): 1097-1106, 2007
  6. G. Ahlenstiel, Kirsten Roomp, Martin Däumer, T. Nattermann, M. Vogel, J.K. Rockstroh, Niko Beerenwinkel, R. Kaiser, H.-D. Nischalke, T. Sauerbruch, Thomas Lengauer, and U. Spengler
    Selective pressures of HLA genotypes and antiviral therapy on human immunodeficiency virus type 1 sequence mutation at a population level
    Clinical and Vaccine Immunology 14 (10): 1266-1273, 2007

  7. Andre Altmann, Martin Däumer, Tobias Sing, Niko Beerenwinkel, Hauke Walter, Rolf Kaiser, and Thomas Lengauer
    Validation of geno2pheno and THEO on a large independent clinical dataset
    In: Proceedings of the 5th European HIV Drug Resistance Workshop, Cascais, Portugal, 2007
  8. Kirsten Roomp, Niko Beerenwinkel, Tobias Sing, Eugen Schülter, Joachim Büch, Saleta Sierra-Aragon, Martin Däumer, Daniel Hoffmann, Rolf Kaiser, Thomas Lengauer, and Joachim Selbig
    Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV
    Lecture Notes in Computer Science 4075: 185-194, 2006
  9. Valentina Svicher, Tobias Sing, Maria Mercedes Santoro, Federica Forbici, Fátima Rodriguez- Barrios, Ada Bertoli, Niko Beerenwinkel, Maria Concetta Bellocchi, Federigo Gago, Antonella d´Arminio Monforte, Andrea Antinori, Thomas Lengauer, Francesca Ceccherini-Silberstein, and Carlo-Federico Perno
    Involvement of novel HIV-1 reverse transcriptase mutations in the regulation of resistance to nucleoside inhibitors
    Journal of Virology 80 (14): 7186-7198, 2006
  10. Junming Yin, Niko Beerenwinkel, Jörg Rahnenführer, and Thomas Lengauer
    Model Selection for Mixtures of Mutagenetic Trees
    Statistical Applications in Genetics and Molecular Biology 5 (1): Article 17 p., 2006

  11. Clara Lehmann, Martin Däumer, Ibrahim Bousaad, Tobias Sing, Niko Beerenwinkel, Thomas Lengauer, Norbert Schmeisser, Christoph Wyen, Gerd Fätkenheuer, and Rolf Kaiser
    Stable coreceptor usage of HIV in patients with ongoing treatment failure on HAART
    Journal of Clinical Virology 37 (4): 300-304, 2006
  12. Tobias Sing, Oliver Sander, Niko Beerenwinkel, and Thomas Lengauer
    ROCR: Visualizing classifier performance in R
    Bioinformatics 21 (20): 3940-3941, 2006
  13. Valentina Svicher, Francesca Ceccherini-Silberstein, Tobias Sing, Maria Mercedes Santoro, C. Gori, Niko Beerenwinkel, F. Gago, R. D'Arrigo, M.C. Bellochi, S. Giannella, A. Bertoli, A. D'Arminio Monforte, A. Antinori, and Carlo-Federico Perno
    A highly ordered network of HIV-1 RT mutations regulates the continuous escape from antiviral drugs
    In: International Workshop in HIV Dynamics and Evolution, Cleveland, Ohio, USA, 2005
  14. Valentina Svicher, Francesca Ceccherini-Silberstein, Tobias Sing, Maria Mercedes Santoro, C. Gori, Niko Beerenwinkel, F. Gago, R. D'Arrigo, M. C. Bellocchi, S. Giannella, A. Bertoli, A. D'Arminio Monforte, A. Antinori, and Carlo-Federico Perno
    Additional Mutations in HIV-1 Reverse Transcriptase are Involved in the Highly Ordered Regulation of NRTI Resistance
    In: Proceedings of the 3rd European HIV Drug Resistance Workshop, Athens, Greece, 2005
  15. Tobias Sing, Valentina Svicher, Niko Beerenwinkel, Francesca Ceccherini-Silberstein, Martin Däumer, Rolf Kaiser, Hauke Walter, Klaus Korn, Daniel Hoffmann, Mark Oette, Jürgen K. Rockstroh, Gerd Fätkenheuer, Carlo-Federico Perno, and Thomas Lengauer
    Characterization of novel HIV Drug Resistance Mutations using clustering, multidimensional scaling and SVM-based feature ranking
    In: Knowledge Discovery in Databases: PKDD 2005., Porto, Portugal, 2005, 285-296
  16. Niko Beerenwinkel, Tobias Sing, Thomas Lengauer, Jörg Rahnenführer, Kirsten Roomp, Igor Savenkov, Roman Fischer, Daniel Hoffmann, Joachim Selbig, Klaus Korn, Hauke Walter, Thomas Berg, Patrick Braun, Gerd Fätkenheuer, Mark Oette, Jürgen Rockstroh, Bernd Kupfer, Rolf Kaiser, and Martin Däumer
    Computational methods for the design of effective therapies against drug resistant HIV strains
    Bioinformatics 21 (21): 3943-3950, 2005
  17. Jörg Rahnenführer, Niko Beerenwinkel, Wolfgang A. Schulz, Christian Hartmann, Andreas von Deimling, Bernd Wullich, and Thomas Lengauer
    Estimating cancer survival and clinical outcome based on genetic tumor progression scores
    Bioinformatics 21 (10): 2438-2446, 2005
  18. Niko Beerenwinkel, Martin Däumer, Tobias Sing, Jörg Rahnenführer, Thomas Lengauer, Joachim Selbig, Daniel Hoffmann, and Rolf Kaiser
    Estimating HIV evolutionary pathways and the genetic barrier to drug resistance
    The Journal of Infectious Diseases 191 (11): 1953-1960, 2005
  19. Melanie Balduin, Niko Beerenwinkel, Saleta Sierra, Martin Däumer, Jürgen Rockstroh, Mark Oette, Gerd Fätkenheuer, Bernd Kupfer, Daniel Hoffmann, Joachim Selbig, Herbert Pfister, and Rolf Kaiser
    Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy
    J Clin Virol 34 (4): 277-287, 2005
  20. Tobias Sing, Niko Beerenwinkel, Rolf Kaiser, Daniel Hoffmann, Martin Däumer, and Thomas Lengauer
    Geno2pheno[coreceptor]: a tool for predicting coreceptor usage from genotype and for monitoring coreceptor-associated sequence alterations
    In: Proceedings of the 3rd European HIV Drug Resistance Workshop, Athens, Greece, 2005
  21. Niko Beerenwinkel, Jörg Rahnenführer, Martin Däumer, Daniel Hoffmann, Rolf Kaiser, Joachim Selbig, and Thomas Lengauer
    Learning multiple evolutionary pathways from cross-sectional data
    Journal of Computational Biology 12 (6): 584-598, 2005
  22. Niko Beerenwinkel, Jörg Rahnenführer, Rolf Kaiser, Daniel Hoffmann, Joachim Selbig, and Thomas Lengauer
    Mtreemix: a software package for learning and using mixture models of mutagenetic trees
    Bioinformatics 21 (9): 2106-2107, 2005
  23. Silke Wemmert, Ralf Ketter, Jörg Rahnenführer, Niko Beerenwinkel, Martin Strowitzki, Wolfgang Feiden, Christian Hartmann, Thomas Lengauer, Florian Stockhammer, Klaus D. Zang, Eckart Meese, Wolf-Ingo Steudel, Andreas von Deimling, and Steffi Urbschat
    Patients with high grade gliomas harboring delections of chromosomes 9p and 10q benefit from temozolomide treatment
    Neoplasia 7 (10): 883-893, 2005

  24. Niko Beerenwinkel
    Computational Analysis of HIV Drug resistance Data
    , Shaker, Aachen, 2004, 180 p.
  25. Niko Beerenwinkel, Tobias Sing, Martin Däumer, Rolf Kaiser, and Thomas Lengauer
    Computing the genetic barrier
    In: XII International HIV Drug resistance Workshop, Tenerife, Spain, 2004, S125-S125
  26. Niko Beerenwinkel
    Das Arevir-Projekt : neue Wege zur Optimierung von Anti-HIV-Therapien
    In: Resistenz in der HIV-Therapie : Diagnostik und Management, 2004, 94-98
  27. Tobias Sing, Niko Beerenwinkel, and Thomas Lengauer
    Learning mixtures of localized rules by maximizing the area under the ROC curve
    In: ROCAI-2004: 1st International Workshop on ROC Analysis in Artificial Intelligence, Valencia, Spain, 2004, 89-96
  28. Niko Beerenwinkel, Jörg Rahnenführer, Martin Däumer, Daniel Hoffmann, Rolf Kaiser, Joachim Selbig, and Thomas Lengauer
    Learning multiple evolutionary pathways from cross-sectional data
    In: RECOMB 2004 : proceedings of the Eighth Annual International Conference on Research in Computational Molecular Biology, San Diego, USA, March, 27-31, 2004, 36-44
  29. Niko Beerenwinkel
    Methoden zur Interpretation genotypischer Resistenztests
    In: Resistenz in der HIV-Therapie : Diagnostik und Management, 2004, 66-68
  30. Niko Beerenwinkel, Martin Däumer, Daniel Hoffmann, Rolf Kaiser, Joachim Selbig, and Thomas Lengauer
    Bioinformatikmethoden für die Optimierung antiviraler Kombinationstherapien
    In: MPG Jahrbuch, 2003, 481-486
  31. Niko Beerenwinkel
    Computational Analysis of HIV Drug Resistance Data
    Doctoral dissertation, Universität des Saarlandes, 2003

  32. Niko Beerenwinkel, Martin Däumer, Rolf Kaiser, Hauke Walter, Klaus Korn, Daniel Hoffmann, Joachim Selbig, and Thomas Lengauer
    Estimating effective drug combinations against drug-resistant mutants from genotypes
    In: Proceedings of the 1st European HIV Drug Resistamce Workshop, Luxembourg, March 6-8, 2003, 2003, 18-18
  33. Niko Beerenwinkel, Martin Däumer, Mark Oette, Klaus Korn, Daniel Hoffmann, Rolf Kaiser, Thomas Lengauer, Joachim Selbig, and Hauke Walter
    Geno2pheno: estimating phenotypic drug resistance from HIV-1 genotypes
    Nucleic Acids Research 31 (13): 3850-3855, 2003
  34. Niko Beerenwinkel, Thomas Lengauer, Martin Däumer, Rolf Kaiser, Hauke Walter, Klaus Korn, Daniel Hoffmann, and Joachim Selbig
    Methods for optimizing antiviral combination therapies
    Bioinformatics 19 (Supplement): i16-i25, 2003
  35. Katharina Wolf, Hauke Walter, Niko Beerenwinkel, Wilco Keulen, Rolf Kaiser, Daniel Hoffmann, Thomas Lengauer, Joachim Selbig, Anne-Mieke Vandamme, Klaus Korn, and Barbara Schmidt
    Tenofovir resistance and resensitization
    Antimicrobial Agents and Chemotherapy 47 (11): 3478-3484, 2003
  36. Niko Beerenwinkel, Rolf Kaiser, Jörg Rahnenführer, Martin Däumer, Daniel Hoffmann, Joachim Selbig, and Thomas Lengauer
    Tree models for the evolution of drug resistance
    In: XII International HIV Drug resistance Workshop, Los Cabos, Mexico, June 10 - June 14, 2003, S107-S107
  37. Niko Beerenwinkel, Barbara Schmidt, Hauke Walter, Rolf Kaiser, Thomas Lengauer, Daniel Hoffmann, Klaus Korn, and Joachim Selbig
    Diversity and complexity of HIV-1drug resistance: A bioinformatics approach to predicting phenotype from genotype
    Proceedings of the National Academy of Sciences 99 (12): 8271-8276, 2002
  38. Niko Beerenwinkel, Thomas Lengauer, Martin Däumer, S. Sierra, Barbara Schmidt, Hauke Walter, Klaus Korn, Mark Oette, Gerd Fätkenheuer, J. Rockstroh, Daniel Hoffmann, Rolf Kaiser, and Joachim Selbig
    Geno2pheno is predictive of short-term virological response
    In: Proceedings from the 5th International Workshop on HIV Drug Resistance & Treatment Strategies, Scotsdale, Arizona, 2002, 74-74, paper no. 89.
  39. Niko Beerenwinkel, Thomas Lengauer, Barbara Schmidt, Hauke Walter, Rolf Kaiser, Daniel Hoffmann, Klaus Korn, and Joachim Selbig
    Quantitative phenotype prediction by support vector machines
    In: Proceedings from the 5th International Workshop on HIV Drug resistance & Treatment Strategies, Scotsdale, Arizona, 2002, 97 p.
  40. Thomas Lengauer, Niko Beerenwinkel, B. Schmidt, H. Walter, R. Kaiser, D. Hoffmann, K. Korn, and J. Selbig
    Geno2pheno: a new machine learning approach to predicting phenotypic drug resistance from genotype
    Antiviral Therapy 6 (Supp. 1): 104 p., 2001
  41. Niko Beerenwinkel, Barbara Schmidt, Hauke Walter, Rolf Kaiser, Thomas Lengauer, Daniel Hoffmann, Klaus Korn, and Joachim Selbig
    Geno2pheno: A system for the interpretation of genotypic HIV Drug resistance tests
    IEEE Intelligent Systems 16 (6): 35-41, 2001
  42. Niko Beerenwinkel, Martin Däumer, Daniel Hoffmann, Rolf Kaiser, Klaus Korn, Thomas Lengauer, Barbara Schmidt, Hauke Walter, and Joachim Selbig
    Neue Wege zur Optimierung von Anti-HIV Therapien
    BIOforum 24 (12): 912-914, 2001