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Thomas Lengauer

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Computational Biology

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Genes & Molecular Sequences

Amino Acid Sequences

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TOP 3
Julia Dietz; Daniel Fitting; Caterina Füller; Eva Herrmann; Thomas Lengauer; Ulrike Mihm; Sven-Eric Schelhorn; Simone Susser; Gerlinde Teuber; Heiner Wedemeyer; Martin Walter Welker; Stefan Zeuzem; Thomas Berg; Martin Däumer; Christoph Sarrazin
Deep Sequencing Reveals Mutagenic Effects of Ribavirin during Monotherapy of Hepatitis C Virus Genotype 1-Infected Patients.
Femke Simmer; Alberto Villanueva; Lucia Altucci; Yassen Assenov; Christoph Bock; Arie B Brinkman; Vittorio Colantuoni; Manel Esteller; Dori Huertas; Anita Kaan; Thomas Lengauer; Filomena Matarese; Lina Sabatino; Hendrik G Stunnenberg
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues.
Nico Pfeifer; Thomas Lengauer
Improving HIV coreceptor usage prediction in the clinic using hints from next-generation sequencing data.

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2013: Julia Dietz; Daniel Fitting; Caterina Füller; Eva Herrmann; Thomas Lengauer; Ulrike Mihm; Sven-Eric Schelhorn; Simone Susser; Gerlinde Teuber; Heiner Wedemeyer; Martin Walter Welker; Stefan Zeuzem; Thomas Berg; Martin Däumer; Christoph Sarrazin
Deep Sequencing Reveals Mutagenic Effects of Ribavirin during Monotherapy of Hepatitis C Virus Genotype 1-Infected Patients.
Journal of virology 2013;87(11):6172-81.
2012: Femke Simmer; Alberto Villanueva; Lucia Altucci; Yassen Assenov; Christoph Bock; Arie B Brinkman; Vittorio Colantuoni; Manel Esteller; Dori Huertas; Anita Kaan; Thomas Lengauer; Filomena Matarese; Lina Sabatino; Hendrik G Stunnenberg
Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues.
Epigenetics : official journal of the DNA Methylation Society 2012;7(12):1355-67.
2012: Nico Pfeifer; Thomas Lengauer
Improving HIV coreceptor usage prediction in the clinic using hints from next-generation sequencing data.
Bioinformatics (Oxford, England) 2012;28(18):i589-i595.
2012: Bastian Beggel; Matthias Döring; Rolf Kaiser; Glenn Lawyer; Maria Neumann-Fraune; Jens Verheyen; Thomas Lengauer
Genotyping hepatitis B virus dual infections using population-based sequence data.
The Journal of general virology 2012;93(Pt 9):1899-907.
2012: Katarzyna Bozek; Manon Eckhardt; Rolf Kaiser; Hans-Georg Kräusslich; Barbara Müller; Saleta Sierra; Maria Anders; Thomas Lengauer
An expanded model of HIV cell entry phenotype based on multi-parameter single-cell data.
Retrovirology 2012;9():60.
2012: Lars Feuerbach; Konstantin Halachev; Yassen Assenov; Christoph Bock; Fabian Müller; Thomas Lengauer
Analyzing epigenome data in context of genome evolution and human diseases.
Methods in molecular biology (Clifton, N.J.) 2012;856():431-67.
2012: Maurizio Zazzi; Andre Altmann; Francesca Incardona; Tamar Lavee; Thomas Lengauer; Mattia Prosperi; Michal Rosen-Zvi; Eugen Schülter; Anders Sonnerborg; Rolf Kaiser
Predicting response to antiretroviral treatment by machine learning: the EuResist project.
Intervirology 2012;55(2):123-7.
2012: Alexander Thielen; Thomas Lengauer
Geno2pheno[454]: a Web server for the prediction of HIV-1 coreceptor usage from next-generation sequencing data.
Intervirology 2012;55(2):113-7.
2012: Thomas Lengauer
Bioinformatical assistance of selecting anti-HIV therapies: where do we stand?
Intervirology 2012;55(2):108-12.
2011: Eugen Schülter; Ali Agacfidan; Melanie Balduin; Stefan Esser; Gerd Fätkenheuer; Rolf Kaiser; Thomas Lengauer; Mark Oette; Herbert Pfister; Stefan Reuter; Jürgen Rockstroh; Baki Akgül
HIV prevalence and route of transmission in Turkish immigrants living in North-Rhine Westphalia, Germany.
Medical microbiology and immunology 2011;200(4):219-23.
2011: Laura Tolosi; Thomas Lengauer
Classification with correlated features: unreliability of feature ranking and solutions.
Bioinformatics (Oxford, England) 2011;27(14):1986-94.
2011: Pavlo Lutsik; Jörn Walter; Julia Arand; Lars Feuerbach; Thomas Lengauer; Christoph Bock
BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing.
Nucleic acids research 2011;39(Web Server issue):W551-6.
2011: Lars Feuerbach; Rune B Lyngsø; Thomas Lengauer; Jotun Hein
Reconstructing the ancestral germ line methylation state of young repeats.
Molecular biology and evolution 2011;28(6):1777-84.
2011: Maurizio Zazzi; R Kaiser; Anders Sönnerborg; Daniel Struck; A Altmann; M Prosperi; Michal Rosen-Zvi; A Petroczi; Y Peres; E Schülter; C A Boucher; F Brun-Vezinet; P R Harrigan; L Morris; M Obermeier; C-F Perno; P Phanuphak; D Pillay; R W Shafer; Anne-Mieke Vandamme; K van Laethem; A M J Wensing; Thomas Lengauer; F Incardona
Prediction of response to antiretroviral therapy by human experts and by the EuResist data-driven expert system (the EVE study).
HIV medicine 2011;12(4):211-8.
2011: Saleta Sierra; Alexander Thielen; Martin Däumer; Stefan Esser; Gerd Fätkenheuer; Eva Heger; Rolf Kaiser; Nadine Lübke; Mark Oette; Herbert Pfister; Stefan Reuter; Eugen Schuelter; Thomas Lengauer
Prediction of HIV-1 coreceptor usage (tropism) by sequence analysis using a genotypic approach.
Journal of visualized experiments : JoVE 2011;(58):.
2011: Alexander Thielen; Thomas Lengauer; Luke C Swenson; Winnie W Y Dong; Rachel A McGovern; Marilyn Lewis; Ian James; Jayvant Heera; Hernan Valdez; P Richard Harrigan
Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially.
Antiviral therapy 2011;16(3):319-28.
2011: Hiroto Saigo; Andre Altmann; Jasmina Bogojeska; Fabian Müller; Sebastian Nowozin; Thomas Lengauer
Learning from past treatments and their outcome improves prediction of in vivo response to anti-HIV therapy.
Statistical applications in genetics and molecular biology 2011;10():Article 6.
2010: Christian Markus Lange; Kirsten Roomp; Anette Dragan; Jacob Nattermann; Monika Michalk; Ulrich Spengler; Viola Weich; Thomas Lengauer; Stefan Zeuzem; Thomas Berg; Christoph Sarrazin
HLA class I allele associations with HCV genetic variants in patients with chronic HCV genotypes 1a or 1b infection.
Journal of hepatology 2010;53(6):1022-8.
2010: Alexander Thielen; Nadine Sichtig; Rolf Kaiser; Jeffrey Lam; P Richard Harrigan; Thomas Lengauer
Improved prediction of HIV‐1 coreceptor usage with sequence information from the second hypervariable loop of gp120.
The Journal of infectious diseases 2010;202(9):1435-43.
2010: Martin Walter Welker; Christoph Welsch; Aline Meyer; Iris Antes; Mario Albrecht; Nicole Forestier; Bernd Kronenberger; Thomas Lengauer; Albrecht Piiper; Stefan Zeuzem; Christoph Sarrazin
Dimerization of the hepatitis C virus nonstructural protein 4B depends on the integrity of an aminoterminal basic leucine zipper.
Protein science : a publication of the Protein Society 2010;19(7):1327-36.
2010: André Altmann; Laura Toloşi; Oliver Sander; Thomas Lengauer
Permutation importance: a corrected feature importance measure.
Bioinformatics (Oxford, England) 2010;26(10):1340-7.
2010: Martin Däumer; Sabine Awerkiew; Saleta Sierra Aragón; Vladimir Kartashev; Tatjana Poplavskaja; Rolf Klein; Nadine Sichtig; Bernhard Thiele; Thomas Lengauer; Kirsten Roomp; Herbert Pfister; Rolf Kaiser
Short communication: selection of thymidine analogue resistance mutational patterns in children infected from a common HIV type 1 subtype G source.
AIDS research and human retroviruses 2010;26(3):275-8.
2010: Ulrike Mihm; Wolf Peter Hofmann; Christoph Welsch; A Polta; Thomas Lengauer; Stefan Zeuzem; Christoph Sarrazin; Eva Herrmann
Effect of ribavirin on the frequency of RNase L cleavage sites within the hepatitis C viral genome.
Journal of viral hepatitis 2010;17(3):217-21.
2010: Katarzyna Bozek; Thomas Lengauer
Positive selection of HIV host factors and the evolution of lentivirus genes.
BMC evolutionary biology 2010;10():186.
2010: Kirsten Roomp; Iris Antes; Thomas Lengauer
Predicting MHC class I epitopes in large datasets.
BMC bioinformatics 2010;11():90.
2010: Hendrik Weisser; André Altmann; Saleta Sierra; Francesca Incardona; Daniel Struck; Anders Sönnerborg; Rolf Kaiser; Maurizio Zazzi; Monika Tschochner; Hauke Walter; Thomas Lengauer
Only slight impact of predicted replicative capacity for therapy response prediction.
PloS one 2010;5(2):e9044.
2009: Saleta Sierra; Thomas Lengauer; Rolf Kaiser
[Resistance screening].
MMW Fortschritte der Medizin 2009;151(18):72, 74-5.
2009: 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; Thomas Lengauer
Predicting the response to combination antiretroviral therapy: retrospective validation of geno2pheno-THEO on a large clinical database.
The Journal of infectious diseases 2009;199(7):999-1006.
2009: Christoph Hartmann; Iris Antes; Thomas Lengauer
Docking and scoring with alternative side-chain conformations.
Proteins 2009;74(3):712-26.
2009: Katarzyna Bozek; Alexander Thielen; Saleta Sierra; Rolf Kaiser; Thomas Lengauer
V3 loop sequence space analysis suggests different evolutionary patterns of CCR5- and CXCR4-tropic HIV.
PloS one 2009;4(10):e7387.
2009: André Altmann; Tobias Sing; Hans Vermeiren; Bart Winters; Elke Van Craenenbroeck; Koen Van der Borght; Soo-Yon Rhee; Robert W Shafer; Eugen Schülter; Rolf Kaiser; Yardena Peres; Anders Sönnerborg; W Jeffrey Fessel; Francesca Incardona; Maurizio Zazzi; Lee Bacheler; Herman van Vlijmen; Thomas Lengauer
Advantages of predicted phenotypes and statistical learning models in inferring virological response to antiretroviral therapy from HIV genotype.
Antiviral therapy 2009;14(2):273-83.
2009: Maria Trignetti; Tobias Sing; Valentina Svicher; Maria Mercedes Santoro; Federica Forbici; Roberta D'Arrigo; Maria Concetta Bellocchi; Mario Santoro; Patrizia Marconi; Mauro Zaccarelli; Maria Paola Trotta; Rita Bellagamba; Pasquale Narciso; Andrea Antinori; Thomas Lengauer; Carlo Federico Perno; Francesca Ceccherini-Silberstein
Dynamics of NRTI resistance mutations during therapy interruption.
AIDS research and human retroviruses 2009;25(1):57-64.
2009: Ulrike Mihm; Oliver Ackermann; Christoph Welsch; Eva Herrmann; Wolf Peter Hofmann; Natalia Grigorian; Martin Walter Welker; Thomas Lengauer; Stefan Zeuzem; Christoph Sarrazin
Clinical relevance of the 2'-5'-oligoadenylate synthetase/RNase L system for treatment response in chronic hepatitis C.
Journal of hepatology 2009;50(1):49-58.
2008: Dorothea Emig; Melissa S Cline; Thomas Lengauer; Mario Albrecht
Integrating expression data with domain interaction networks.
Bioinformatics (Oxford, England) 2008;24(21):2546-8.
2008: Jasmina Bogojeska; Adrian Alexa; André Altmann; Thomas Lengauer; Jörg Rahnenführer
Rtreemix: an R package for estimating evolutionary pathways and genetic progression scores.
Bioinformatics (Oxford, England) 2008;24(20):2391-2.
2008: Sven-Eric Schelhorn; Thomas Lengauer; Mario Albrecht
An integrative approach for predicting interactions of protein regions.
Bioinformatics (Oxford, England) 2008;24(16):i35-41.
2008: Christoph Bock; Jörn Walter; Martina Paulsen; Thomas Lengauer
Inter-individual variation of DNA methylation and its implications for large-scale epigenome mapping.
Nucleic acids research 2008;36(10):e55.
2008: Yassen Assenov; Fidel Ramírez; Sven-Eric Schelhorn; Thomas Lengauer; Mario Albrecht
Computing topological parameters of biological networks.
Bioinformatics (Oxford, England) 2008;24(2):282-4.
2008: Dorothea Emig; Melissa S Cline; Karsten Klein; Anne Kunert; Petra Mutzel; Thomas Lengauer; Mario Albrecht
Integrative visual analysis of the effects of alternative splicing on protein domain interaction networks.
Journal of integrative bioinformatics 2008;5(2):.
2008: André Altmann; Michal Rosen-Zvi; Mattia Prosperi; Ehud Aharoni; Hani Neuvirth; Eugen Schülter; Joachim Büch; Daniel Struck; Yardena Peres; Francesca Incardona; Anders Sönnerborg; Rolf Kaiser; Maurizio Zazzi; Thomas Lengauer
Comparison of classifier fusion methods for predicting response to anti HIV-1 therapy.
PloS one 2008;3(10):e3470.
2008: Nils Weinhold; Oliver Sander; Francisco S Domingues; Thomas Lengauer; Ingolf Sommer
Local function conservation in sequence and structure space.
PLoS computational biology 2008;4(7):e1000105.
2008: Jasmina Bogojeska; Thomas Lengauer; Jörg Rahnenführer
Stability analysis of mixtures of mutagenetic trees.
BMC bioinformatics 2008;9():165.
2008: Christoph Welsch; Francisco S Domingues; Simone Susser; Iris Antes; Christoph Hartmann; Gabriele Mayr; Andreas Schlicker; Christoph Sarrazin; Mario Albrecht; Stefan Zeuzem; Thomas Lengauer
Molecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of the hepatitis C virus.
Genome biology 2008;9(1):R16.
2007: Ingolf Sommer; Oliver Müller; Francisco S Domingues; Oliver Sander; Joachim Weickert; Thomas Lengauer
Moment invariants as shape recognition technique for comparing protein binding sites.
Bioinformatics (Oxford, England) 2007;23(23):3139-46.
2007: Francisco S Domingues; Jörg Rahnenführer; Thomas Lengauer
Conformational analysis of alternative protein structures.
Bioinformatics (Oxford, England) 2007;23(23):3131-8.
2007: Bernd Kupfer; Tobias Sing; Peter Schüffler; Rabea Hall; Ralf Kurz; Astrid McKeown; Karl-Eduard Schneweis; Wolfgang Eberl; Johannes Oldenburg; Hans H Brackmann; Jürgen K Rockstroh; Ulrich Spengler; Martin Däumer; Rolf Kaiser; Thomas Lengauer; Bertfried Matz
Fifteen years of env C2V3C3 evolution in six individuals infected clonally with human immunodeficiency virus type 1.
Journal of medical virology 2007;79(11):1629-39.
2007: Saleta Sierra; Rolf Kaiser; A Thielen; Thomas Lengauer
Genotypic coreceptor analysis.
European journal of medical research 2007;12(9):453-62.
2007: Golo Ahlenstiel; Kirsten Roomp; Martin Däumer; Jacob Nattermann; Martin Vogel; Jürgen K Rockstroh; Niko Beerenwinkel; Rolf Kaiser; Hans Dieter Nischalke; Tilman Sauerbruch; Thomas Lengauer; Ulrich 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 : CVI 2007;14(10):1266-73.
2007: Francesca Ceccherini-Silberstein; Valentina Svicher; Tobias Sing; Anna Artese; Maria Mercedes Santoro; Federica Forbici; Ada Bertoli; Stefano Alcaro; Guido Palamara; Antonella d'Arminio Monforte; Jan Balzarini; Andrea Antinori; Thomas Lengauer; Carlo Federico Perno
Characterization and structural analysis of novel mutations in human immunodeficiency virus type 1 reverse transcriptase involved in the regulation of resistance to nonnucleoside inhibitors.
Journal of virology 2007;81(20):11507-19.
2007: Ralf Ketter; Steffi Urbschat; Wolfram Henn; Wolfgang Feiden; Niko Beerenwinkel; Thomas Lengauer; Wolf-Ingo Steudel; Klaus D Zang; Jörg Rahnenführer
Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas.
International journal of cancer. Journal international du cancer 2007;121(7):1473-80.
2007: Christoph Welsch; Mario Albrecht; Jochen Maydt; Eva Herrmann; Martin Walter Welker; Christoph Sarrazin; Axel J Scheidig; Thomas Lengauer; Stefan Zeuzem
Structural and functional comparison of the non-structural protein 4B in flaviviridae.
Journal of molecular graphics & modelling 2007;26(2):546-57.
2007: Fidel Ramírez; Andreas Schlicker; Yassen Assenov; Thomas Lengauer; Mario Albrecht
Computational analysis of human protein interaction networks.
Proteomics 2007;7(15):2541-52.
2007: Christoph Hartmann; Iris Antes; Thomas Lengauer
IRECS: a new algorithm for the selection of most probable ensembles of side-chain conformations in protein models.
Protein science : a publication of the Protein Society 2007;16(7):1294-307.
2007: Martin Walter Welker; Wolf Peter Hofmann; Christoph Welsch; Michael von Wagner; Eva Herrmann; Thomas Lengauer; Stefan Zeuzem; Christoph Sarrazin
Correlation of amino acid variations within nonstructural 4B protein with initial viral kinetics during interferon-alpha-based therapy in HCV-1b-infected patients.
Journal of viral hepatitis 2007;14(5):338-49.
2007: Andreas Schlicker; Carola Huthmacher; Fidel Ramírez; Thomas Lengauer; Mario Albrecht
Functional evaluation of domain-domain interactions and human protein interaction networks.
Bioinformatics (Oxford, England) 2007;23(7):859-65.
2007: Oliver Sander; Tobias Sing; Ingolf Sommer; Andrew J Low; Peter K Cheung; P Richard Harrigan; Thomas Lengauer; Francisco S Domingues
Structural descriptors of gp120 V3 loop for the prediction of HIV-1 coreceptor usage.
PLoS computational biology 2007;3(3):e58.
2007: Tobias Sing; Andrew J Low; Niko Beerenwinkel; Oliver Sander; Peter K Cheung; Francisco S Domingues; Joachim Büch; Martin Däumer; Rolf Kaiser; Thomas Lengauer; P Richard Harrigan
Predicting HIV coreceptor usage on the basis of genetic and clinical covariates.
Antiviral therapy 2007;12(7):1097-106.
2007: Andreas Steffen; Carolin Thiele; Simon Tietze; Christian Strassnig; Andreas Kämper; Thomas Lengauer; Gerhard Wenz; Joannis Apostolakis
Improved cyclodextrin-based receptors for camptothecin by inverse virtual screening.
Chemistry (Weinheim an der Bergstrasse, Germany) 2007;13(24):6801-9.
2007: Aline Flockerzi; Jochen Maydt; Oliver Frank; Alessia Ruggieri; Esther Maldener; Wolfgang Seifarth; Patrik Medstrand; Thomas Lengauer; Andreas Meyerhans; Christine Leib-Mösch; Eckart Meese; Jens Mayer
Expression pattern analysis of transcribed HERV sequences is complicated by ex vivo recombination.
Retrovirology 2007;4():39.
2007: Andre Altmann; Niko Beerenwinkel; Tobias Sing; Igor Savenkov; Martin Doumer; Rolf Kaiser; Soo-Yon Rhee; W Jeffrey Fessel; Robert W Shafer; Thomas Lengauer
Improved prediction of response to antiretroviral combination therapy using the genetic barrier to drug resistance.
Antiviral therapy 2007;12(2):169-78.
2007: Andreas Schlicker; Jörg Rahnenführer; Mario Albrecht; Thomas Lengauer; Francisco S Domingues
GOTax: investigating biological processes and biochemical activities along the taxonomic tree.
Genome biology 2007;8(3):R33.
2007: Wolfgang A Schulz; Adrian Alexa; Volker Jung; Christiane Hader; Michèle J Hoffmann; Masanori Yamanaka; Sandy Fritzsche; Agnes Wlazlinski; Mirko Müller; Thomas Lengauer; Rainer Engers; Andrea R Florl; Bernd Wullich; Jörg Rahnenführer
Factor interaction analysis for chromosome 8 and DNA methylation alterations highlights innate immune response suppression and cytoskeletal changes in prostate cancer.
Molecular cancer 2007;6():14.
2006: Clara Lehmann; Martin Däumer; Ibrahim Boussaad; Tobias Sing; Niko Beerenwinkel; Thomas Lengauer; Norbert Schmeisser; Christoph Wyen; Gerd Fätkenheuer; Rolf Kaiser
Stable coreceptor usage of HIV in patients with ongoing treatment failure on HAART.
Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2006;37(4):300-4.
2006: Thomas Lengauer; Tobias Sing
Bioinformatics-assisted anti-HIV therapy.
Nature reviews. Microbiology 2006;4(10):790-7.
2006: Andreas Steffen; Andreas Kämper; Thomas Lengauer
Flexible docking of ligands into synthetic receptors using a two-sided incremental construction algorithm.
Journal of chemical information and modeling 2006;46(4):1695-703.
2006: Valentina Svicher; Tobias Sing; Maria Mercedes Santoro; Federica Forbici; Fátima Rodríguez-Barrios; Ada Bertoli; Niko Beerenwinkel; Maria Concetta Bellocchi; Federico Gago; Antonella d'Arminio Monforte; Andrea Antinori; Thomas Lengauer; Francesca Ceccherini-Silberstein; Carlo Federico Perno
Involvement of novel human immunodeficiency virus type 1 reverse transcriptase mutations in the regulation of resistance to nucleoside inhibitors.
Journal of virology 2006;80(14):7186-98.
2006: Adrian Alexa; Jörg Rahnenführer; Thomas Lengauer
Improved scoring of functional groups from gene expression data by decorrelating GO graph structure.
Bioinformatics (Oxford, England) 2006;22(13):1600-7.
2006: Burkhard Heil; Jost Ludwig; Hella Lichtenberg-Fraté; Thomas Lengauer
Computational recognition of potassium channel sequences.
Bioinformatics (Oxford, England) 2006;22(13):1562-8.
2006: Jochen Maydt; Thomas Lengauer
Recco: recombination analysis using cost optimization.
Bioinformatics (Oxford, England) 2006;22(9):1064-71.
2006: Andreas Kämper; Joannis Apostolakis; Matthias Rarey; Christel M Marian; Thomas Lengauer
Fully automated flexible docking of ligands into flexible synthetic receptors using forward and inverse docking strategies.
Journal of chemical information and modeling 2006;46(2):903-11.
2006: Guido Plotz; Christoph Welsch; Luis Giron-Monzon; Peter Friedhoff; Mario Albrecht; Albrecht Piiper; Ricardo M Biondi; Thomas Lengauer; Stefan Zeuzem; Jochen Raedle
Mutations in the MutSalpha interaction interface of MLH1 can abolish DNA mismatch repair.
Nucleic acids research 2006;34(22):6574-86.
2006: Junming Yin; Niko Beerenwinkel; Jörg Rahnenführer; Thomas Lengauer
Model selection for mixtures of mutagenetic trees.
Statistical applications in genetics and molecular biology 2006;5():Article17.
2006: Ingolf Sommer; Stefano Toppo; Oliver Sander; Thomas Lengauer; Silvio C E Tosatto
Improving the quality of protein structure models by selecting from alignment alternatives.
BMC bioinformatics 2006;7():364.
2006: Ulrike Mihm; Natalia Grigorian; Christoph Welsch; Eva Herrmann; Bernd Kronenberger; Gerlinde Teuber; Michael von Wagner; Wolf Peter Hofmann; Mario Albrecht; Thomas Lengauer; Stefan Zeuzem; Christoph Sarrazin
Amino acid variations in hepatitis C virus p7 and sensitivity to antiviral combination therapy with amantadine in chronic hepatitis C.
Antiviral therapy 2006;11(4):507-19.
2006: Andreas Schlicker; Francisco S Domingues; Jörg Rahnenführer; Thomas Lengauer
A new measure for functional similarity of gene products based on Gene Ontology.
BMC bioinformatics 2006;7():302.
2006: Dirk Neumann; Oliver Kohlbacher; Christian Merkwirth; Thomas Lengauer
A fully computational model for predicting percutaneous drug absorption.
Journal of chemical information and modeling 2006;46(1):424-9.
2006: Hongbo Zhu; Francisco S Domingues; Ingolf Sommer; Thomas Lengauer
NOXclass: prediction of protein-protein interaction types.
BMC bioinformatics 2006;7():27.
2006: Oliver Sander; Ingolf Sommer; Thomas Lengauer
Local protein structure prediction using discriminative models.
BMC bioinformatics 2006;7():14.
2005: Christoph Sarrazin; Ulrike Mihm; Eva Herrmann; Christoph Welsch; Mario Albrecht; Ulrike Sarrazin; Stella Traver; Thomas Lengauer; Stefan Zeuzem
Clinical significance of in vitro replication-enhancing mutations of the hepatitis C virus (HCV) replicon in patients with chronic HCV infection.
The Journal of infectious diseases 2005;192(10):1710-9.
2005: 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; Martin Däumer
Computational methods for the design of effective therapies against drug resistant HIV strains.
Bioinformatics (Oxford, England) 2005;21(21):3943-50.
2005: Gerhard Hessler; Marc Zimmermann; Hans Matter; Andreas Evers; Thorsten Naumann; Thomas Lengauer; Matthias Rarey
Multiple-ligand-based virtual screening: methods and applications of the MTree approach.
Journal of medicinal chemistry 2005;48(21):6575-84.
2005: Tobias Sing; Oliver Sander; Niko Beerenwinkel; Thomas Lengauer
ROCR: visualizing classifier performance in R.
Bioinformatics (Oxford, England) 2005;21(20):3940-1.
2005: 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; Steffi Urbschat
Patients with high-grade gliomas harboring deletions of chromosomes 9p and 10q benefit from temozolomide treatment.
Neoplasia (New York, N.Y.) 2005;7(10):883-93.
2005: Jörg Bojunga; Christoph Welsch; Iris Antes; Mario Albrecht; Thomas Lengauer; Stefan Zeuzem
Structural and functional analysis of a novel mutation of CYP21B in a heterozygote carrier of 21-hydroxylase deficiency.
Human genetics 2005;117(6):558-64.
2005: Mario Albrecht; Carola Huthmacher; Silvio C E Tosatto; Thomas Lengauer
Decomposing protein networks into domain-domain interactions.
Bioinformatics (Oxford, England) 2005;21 Suppl 2():ii220-1.
2005: Iris Antes; Christian Merkwirth; Thomas Lengauer
POEM: Parameter Optimization using Ensemble Methods: application to target specific scoring functions.
Journal of chemical information and modeling 2005;45(5):1291-302.
2005: Christian Merkwirth; Thomas Lengauer
Automatic generation of complementary descriptors with molecular graph networks.
Journal of chemical information and modeling 2005;45(5):1159-68.
2005: Niko Beerenwinkel; Jörg Rahnenführer; Martin Däumer; Daniel Hoffmann; Rolf Kaiser; Joachim Selbig; Thomas Lengauer
Learning multiple evolutionary pathways from cross-sectional data.
Journal of computational biology : a journal of computational molecular cell biology 2005;12(6):584-98.
2005: Niko Beerenwinkel; Martin Däumer; Tobias Sing; Jörg Rahnenführer; Thomas Lengauer; Joachim Selbig; Daniel Hoffmann; Rolf Kaiser
Estimating HIV evolutionary pathways and the genetic barrier to drug resistance.
The Journal of infectious diseases 2005;191(11):1953-60.
2005: Jörg Rahnenführer; Niko Beerenwinkel; Wolfgang A Schulz; Christian Hartmann; Andreas von Deimling; Bernd Wullich; Thomas Lengauer
Estimating cancer survival and clinical outcome based on genetic tumor progression scores.
Bioinformatics (Oxford, England) 2005;21(10):2438-46.
2005: Niko Beerenwinkel; Jörg Rahnenführer; Rolf Kaiser; Daniel Hoffmann; Joachim Selbig; Thomas Lengauer
Mtreemix: a software package for learning and using mixture models of mutagenetic trees.
Bioinformatics (Oxford, England) 2005;21(9):2106-7.
2005: Sarah Ulmschneider; Ursula Müller-Vieira; Markus Mitrenga; Rolf W Hartmann; Sandrine Oberwinkler-Marchais; Christian D Klein; Matthias Bureik; Rita Bernhardt; Iris Antes; Thomas Lengauer
Synthesis and evaluation of imidazolylmethylenetetrahydronaphthalenes and imidazolylmethyleneindanes: potent inhibitors of aldosterone synthase.
Journal of medicinal chemistry 2005;48(6):1796-805.
2005: Sarah Ulmschneider; Ursula Müller-Vieira; Christian D Klein; Iris Antes; Thomas Lengauer; Rolf W Hartmann
Synthesis and evaluation of (pyridylmethylene)tetrahydronaphthalenes/-indanes and structurally modified derivatives: potent and selective inhibitors of aldosterone synthase.
Journal of medicinal chemistry 2005;48(5):1563-75.
2005: Mario Albrecht; Divaker Choubey; Thomas Lengauer
The HIN domain of IFI-200 proteins consists of two OB folds.
Biochemical and biophysical research communications 2005;327(3):679-87.
2005: Andreas Hahn; Jörg Rahnenführer; Priti Talwar; Thomas Lengauer
Confirmation of human protein interaction data by human expression data.
BMC bioinformatics 2005;6():112.
2004: Christian Merkwirth; Harald Mauser; Tanja Schulz-Gasch; Olivier Roche; Martin Stahl; Thomas Lengauer
Ensemble methods for classification in cheminformatics.
Journal of chemical information and computer sciences 2004;44(6):1971-8.
2004: Niklas von Ohsen; Ingolf Sommer; Ralf Zimmer; Thomas Lengauer
Arby: automatic protein structure prediction using profile-profile alignment and confidence measures.
Bioinformatics (Oxford, England) 2004;20(14):2228-35.
2004: Wolf Peter Hofmann; Eva Herrmann; Bernd Kronenberger; Christian Merkwirth; Christoph Welsch; Thomas Lengauer; Stefan Zeuzem; Christoph Sarrazin
Association of HCV-related mixed cryoglobulinemia with specific mutational pattern of the HCV E2 protein and CD81 expression on peripheral B lymphocytes.
Blood 2004;104(4):1228-9.
2004: Mario Albrecht; Michael Golatta; Ullrich Wüllner; Thomas Lengauer
Structural and functional analysis of ataxin-2 and ataxin-3.
European journal of biochemistry / FEBS 2004;271(15):3155-70.
2004: Mario Albrecht; Thomas Lengauer
Novel Sm-like proteins with long C-terminal tails and associated methyltransferases.
FEBS letters 2004;569(1-3):18-26.
2004: Francisco S Domingues; Jörg Rahnenführer; Thomas Lengauer
Automated clustering of ensembles of alternative models in protein structure databases.
Protein engineering, design & selection : PEDS 2004;17(6):537-43.
2004: Mario Albrecht; Thomas Lengauer
Survey on the PABC recognition motif PAM2.
Biochemical and biophysical research communications 2004;316(1):129-38.
2004: Ingolf Sommer; Jörg Rahnenführer; Francisco S Domingues; U de Lichtenberg; Thomas Lengauer
Predicting protein structure classes from function predictions.
Bioinformatics (Oxford, England) 2004;20(5):770-6.
2004: Jörg Rahnenführer; Francisco S Domingues; Jochen Maydt; Thomas Lengauer
Calculating the statistical significance of changes in pathway activity from gene expression data.
Statistical applications in genetics and molecular biology 2004;3():Article16.
2004: Thomas Lengauer; Christian Lemmen; Matthias Rarey; Marc Zimmermann
Novel technologies for virtual screening.
Drug discovery today 2004;9(1):27-34.
2003: Mario Albrecht; Thomas Lengauer; Stefan Schreiber
Disease-associated variants in PYPAF1 and NOD2 result in similar alterations of conserved sequence.
Bioinformatics (Oxford, England) 2003;19(17):2171-5.
2003: Mario Albrecht; Francisco S Domingues; Stefan Schreiber; Thomas Lengauer
Structural localization of disease-associated sequence variations in the NACHT and LRR domains of PYPAF1 and NOD2.
FEBS letters 2003;554(3):520-8.
2003: Katharina Wolf; Hauke Walter; Niko Beerenwinkel; Wilco Keulen; Rolf Kaiser; Daniel Hoffmann; Thomas Lengauer; Joachim Selbig; Anne-Mieke Vandamme; Klaus Korn; Barbara Schmidt
Tenofovir resistance and resensitization.
Antimicrobial agents and chemotherapy 2003;47(11):3478-84.
2003: Mario Albrecht; Silvio C E Tosatto; Thomas Lengauer; Giorgio Valle
Simple consensus procedures are effective and sufficient in secondary structure prediction.
Protein engineering 2003;16(7):459-62.
2003: Mario Albrecht; Thomas Lengauer
Pyranose oxidase identified as a member of the GMC oxidoreductase family.
Bioinformatics (Oxford, England) 2003;19(10):1216-20.
2003: Niko Beerenwinkel; Martin Däumer; Mark Oette; Klaus Korn; Daniel Hoffmann; Rolf Kaiser; Thomas Lengauer; Joachim Selbig; Hauke Walter
Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes.
Nucleic acids research 2003;31(13):3850-5.
2003: Mario Albrecht; Francisco S Domingues; Stefan Schreiber; Thomas Lengauer
Identification of mammalian orthologs associates PYPAF5 with distinct functional roles.
FEBS letters 2003;538(1-3):173-7.
2003: Mario Albrecht; Daniel Hoffmann; Bernd Evert; Ina Schmitt; Ullrich Wüllner; Thomas Lengauer
Structural modeling of ataxin-3 reveals distant homology to adaptins.
Proteins 2003;50(2):355-70.
2003: Alexander Zien; Juliane Fluck; Ralf Zimmer; Thomas Lengauer
Microarrays: how many do you need?
Journal of computational biology : a journal of computational molecular cell biology 2003;10(3-4):653-67.
2003: Niko Beerenwinkel; Thomas Lengauer; Martin Däumer; Rolf Kaiser; Hauke Walter; Klaus Korn; Daniel Hoffmann; Joachim Selbig
Methods for optimizing antiviral combination therapies.
Bioinformatics (Oxford, England) 2003;19 Suppl 1():i16-25.
2002: Niko Beerenwinkel; Barbara Schmidt; Hauke Walter; Rolf Kaiser; Thomas Lengauer; Daniel Hoffmann; Klaus Korn; Joachim Selbig
Diversity and complexity of HIV-1 drug resistance: a bioinformatics approach to predicting phenotype from genotype.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(12):8271-6.
2002: Ingolf Sommer; Alexander Zien; Niklas von Ohsen; Ralf Zimmer; Thomas Lengauer
Confidence measures for protein fold recognition.
Bioinformatics (Oxford, England) 2002;18(6):802-12.
2002: Jan Freudenberg; Ralf Zimmer; Daniel Hanisch; Thomas Lengauer
A hypergraph-based method for unification of existing protein structure- and sequence-families.
In silico biology 2002;2(3):339-49.
2002: Mario Albrecht; Daniel Hanisch; Ralf Zimmer; Thomas Lengauer
Improving fold recognition of protein threading by experimental distance constraints.
In silico biology 2002;2(3):325-37.
2002: Daniel Hanisch; Ralf Zimmer; Thomas Lengauer
ProML--the protein markup language for specification of protein sequences, structures and families.
In silico biology 2002;2(3):313-24.
2002: Daniel Hanisch; Alexander Zien; Ralf Zimmer; Thomas Lengauer
Co-clustering of biological networks and gene expression data.
Bioinformatics (Oxford, England) 2002;18 Suppl 1():S145-54.
2001: H Claussen; C Buning; Matthias Rarey; Thomas Lengauer
FlexE: efficient molecular docking considering protein structure variations.
Journal of molecular biology 2001;308(2):377-95.
2001: Alexander Zien; T Aigner; Ralf Zimmer; Thomas Lengauer
Centralization: a new method for the normalization of gene expression data.
Bioinformatics (Oxford, England) 2001;17 Suppl 1():S323-31.
2000: Robert Küffner; Ralf Zimmer; Thomas Lengauer
Pathway analysis in metabolic databases via differential metabolic display (DMD).
Bioinformatics (Oxford, England) 2000;16(9):825-36.
2000: Alexander Zien; Gunnar Rätsch; Sebastian Mika; Bernhard Schölkopf; Thomas Lengauer; Klaus-Robert Müller
Engineering support vector machine kernels that recognize translation initiation sites.
Bioinformatics (Oxford, England) 2000;16(9):799-807.
2000: C Lemmen; Thomas Lengauer
Computational methods for the structural alignment of molecules.
Journal of computer-aided molecular design 2000;14(3):215-32.
2000: Alexander Zien; Ralf Zimmer; Thomas Lengauer
A simple iterative approach to parameter optimization.
Journal of computational biology : a journal of computational molecular cell biology 2000;7(3-4):483-501.
2000: Alexander Zien; Robert Küffner; Ralf Zimmer; Thomas Lengauer
Analysis of gene expression data with pathway scores.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 2000;8():407-17.
1999: J Selbig; T Mevissen; Thomas Lengauer
Decision tree-based formation of consensus protein secondary structure prediction.
Bioinformatics (Oxford, England) 1999;15(12):1039-46.
1999: B Kramer; Matthias Rarey; Thomas Lengauer
Evaluation of the FLEXX incremental construction algorithm for protein-ligand docking.
Proteins 1999;37(2):228-41.
1999: D Hoffmann; B Kramer; T Washio; T Steinmetzer; Matthias Rarey; Thomas Lengauer
Two-stage method for protein-ligand docking.
Journal of medicinal chemistry 1999;42(21):4422-33.
1999: Ralf Thiele; R Zimmer; Thomas Lengauer
Protein threading by recursive dynamic programming.
Journal of molecular biology 1999;290(3):757-79.
1999: Matthias Rarey; B Kramer; Thomas Lengauer
Docking of hydrophobic ligands with interaction-based matching algorithms.
Bioinformatics (Oxford, England) 1999;15(3):243-50.
1999: C Lemmen; Alexander Zien; Ralf Zimmer; Thomas Lengauer
Application of parameter optimization to molecular comparison problems.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1999;():482-93.
1999: Matthias Rarey; B Kramer; Thomas Lengauer
The particle concept: placing discrete water molecules during protein-ligand docking predictions.
Proteins 1999;34(1):17-28.
1998: C Lemmen; Thomas Lengauer; G Klebe
FLEXS: a method for fast flexible ligand superposition.
Journal of medicinal chemistry 1998;41(23):4502-20.
1998: C Lemmen; C Hiller; Thomas Lengauer
RigFit: a new approach to superimposing ligand molecules.
Journal of computer-aided molecular design 1998;12(5):491-502.
1997: Matthias Rarey; B Kramer; Thomas Lengauer
Multiple automatic base selection: protein-ligand docking based on incremental construction without manual intervention.
Journal of computer-aided molecular design 1997;11(4):369-84.
1997: C Lemmen; Thomas Lengauer
Time-efficient flexible superposition of medium-sized molecules.
Journal of computer-aided molecular design 1997;11(4):357-68.
1997: B Kramer; Matthias Rarey; Thomas Lengauer
CASP2 experiences with docking flexible ligands using FlexX.
Proteins 1997;Suppl 1():221-5.
1997: I Koch; Thomas Lengauer
Detection of distant structural similarities in a set of proteins using a fast graph-based method.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 1997;5():167-78.
1996: Matthias Rarey; B Kramer; Thomas Lengauer; G Klebe
A fast flexible docking method using an incremental construction algorithm.
Journal of molecular biology 1996;261(3):470-89.
1996: Thomas Lengauer; Matthias Rarey
Computational methods for biomolecular docking.
Current opinion in structural biology 1996;6(3):402-6.
1996: Matthias Rarey; S Wefing; Thomas Lengauer
Placement of medium-sized molecular fragments into active sites of proteins.
Journal of computer-aided molecular design 1996;10(1):41-54.
1996: I Koch; Thomas Lengauer; E Wanke
An algorithm for finding maximal common subtopologies in a set of protein structures.
Journal of computational biology : a journal of computational molecular cell biology 1996;3(2):289-306.
1995: Ralf Thiele; R Zimmer; Thomas Lengauer
Recursive dynamic programming for adaptive sequence and structure alignment.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 1995;3():384-92.
1995: Matthias Rarey; B Kramer; Thomas Lengauer
Time-efficient docking of flexible ligands into active sites of proteins.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 1995;3():300-8.