Upper and Lower Bounds on Time-Space Tradeoffs - Thomas Lengauer; Robert Endre Tarjan (STOC, 1979)

A Fast Algorithm for Finding Dominators in a Flowgraph. - Thomas Lengauer; Robert Endre Tarjan (ACM Trans. Program. Lang. Syst., 1979)

Upper and lower bounds on time-space tradeoffs in a pebble game. - Thomas Lengauer (1979)

The Space Complexity of Pebble Games on Trees. - Thomas Lengauer; Robert Endre Tarjan (Inf. Process. Lett., 1980)

The Pebbling Problem is Complete in Polynomial Space. - John R. Gilbert; Thomas Lengauer; Robert Endre Tarjan (SIAM J. Comput., 1980)

Black-White Pebbles and Graph Separation. - Thomas Lengauer (Acta Informatica, 1981)

The Complexity of Compacting Hierarchically Specified Layouts of Integrated Circuits (Preliminary Version) - Thomas Lengauer (FOCS, 1982)

Cube-Connected Cycles - Shuffle Exchange Graph - Das aktuelle Schlagwort. - Thomas Lengauer (Inform. Spektrum, 1982)

Asymptotically tight bounds on time-space trade-offs in a pebble game. - Thomas Lengauer; Robert Endre Tarjan (J. ACM, 1982)

Efficient Algorithms for the Constraint Generation for Integrated Circuit Layout Compaction. - Thomas Lengauer (WG, 1983)

Algorithmische Spezifikation von symbolischen Layouts integrierter Schaltkreise. - Thomas Lengauer (GI Jahrestagung (Fachgespräche), 1984)

On the Solution of Inequality Systems Relevant to IC-Layout. - Thomas Lengauer (J. Algorithms, 1984)

Exploiting Hierarchy in VLSI Design. - Thomas Lengauer (Aegean Workshop on Computing, 1986)

Linear Algorithms For Two CMOS Layout Problems. - Rolf Müller; Thomas Lengauer (Aegean Workshop on Computing, 1986)

Hierarchische Darstellung geometrischer Objekte und ihre algorithmische Bedeutung. - Thomas Lengauer (GI Jahrestagung (1), 1986)

Hierarchical Planary Testing Algorithms. - Thomas Lengauer (ICALP, 1986)

An analysis of ternary simulation as a tool for race detection in digital MOS circuits. - Thomas Lengauer; Stefan Näher (Integr., 1986)

Efficient solutions of hierarchical systems of linear equations. - Thomas Lengauer; Christian Wieners (Computing, 1987)

Efficient Algorithms for Finding Minimum Spanning Forests of Hierarchically Defined Graphs. - Thomas Lengauer (J. Algorithms, 1987)

Algorithmic Aspects of One-Dimensional Layout Compaction. - Jürgen Doenhardt; Thomas Lengauer (IEEE Trans. Comput. Aided Des. Integr. Circuits Syst., 1987)

Efficient Analysis of Graph Properties on Context-free Graph Languages (Extended Abstract). - Thomas Lengauer; Egon Wanke (ICALP, 1988)

Efficient processing of hierarchical graphs for engineering design. - Thomas Lengauer; Egon Wanke (Bull. EATCS, 1988)

Linear arrangement problems on recursively partitioned graphs. - Thomas Lengauer; Rolf Müller (ZOR Methods Model. Oper. Res., 1988)

Efficient Solution of Connectivity Problems on Hierarchically Defined Graphs. - Thomas Lengauer; Egon Wanke (SIAM J. Comput., 1988)

Hierarchical planarity testing algorithms. - Thomas Lengauer (J. ACM, 1989)

Combinatorial algorithms for integrated circuit layout. - Thomas Lengauer (Teubner, 1990)

VLSI Theory. - Thomas Lengauer (Handbook of Theoretical Computer Science, Volume A: Algorithms and Complexity (A), 1990)

A Robust Framework for Hierarchical Floorplanning with Integrated Global Wiring. - Thomas Lengauer; Rolf Müller (ICCAD, 1990)

The Binary Network Flow Problem is Logspace Complete for P. - Thomas Lengauer; Klaus W. Wagner (Theor. Comput. Sci., 1990)

Synthesis of multi-level logic with one symbolic input. - Frank Buijs; Thomas Lengauer (EURO-DAC, 1991)

Efficient Algorithms for Path Problems with Gernal Cost Citeria. - Thomas Lengauer; Dirk Theune (ICALP, 1991)

Unstructured Path Problems and the Making of Semirings (Preliminary Version). - Thomas Lengauer; Dirk Theune (WADS, 1991)

The efficient solution of integer programs for hierarchical global routing. - Jörg Heistermann; Thomas Lengauer (IEEE Trans. Comput. Aided Des. Integr. Circuits Syst., 1991)

Processing of Hierarchically Defined Graphs and Graph Families. - Franz Höfting; Thomas Lengauer; Egon Wanke (Data Structures and Efficient Algorithms, 1992)

HERO: hierarchical EMC-constrained routing. - Dirk Theune; Ralf Thiele; Thomas Lengauer; Anja Feldmann (ICCAD, 1992)

The Correlation between the Complexities of the Nonhierarchical and Hierarchical Versions of Graph Problems. - Thomas Lengauer; Klaus W. Wagner (J. Comput. Syst. Sci., 1992)

Integer Program formulations of Global Routing and Placement Problems. - Thomas Lengauer; Martin Lügering (Algorithmic Aspects of VLSI Layout, 1993)

Informatik in den technischen Disziplinen. - Thomas Lengauer (Perspektiven der Informatik, 1993)

Informatik in den Naturwissenschaften. - Thomas Lengauer (Perspektiven der Informatik, 1993)

Algorithmic Research Problems in Molecular Bioinformatics. - Thomas Lengauer (ISTCS, 1993)

Efficient Automatic Part Nesting on Irregular and Inhomogeneous Surfaces. - Jörg Heistermann; Thomas Lengauer (SODA, 1993)

Efficient Decision Procedures for Graph Properties on Centext-Free Graph Languages. - Thomas Lengauer; Egon Wanke (J. ACM, 1993)

1. Fachtagung "Informatik in den Biowissenschaften". - Ralf Hofestädt; Fritz Krückeberg; Thomas Lengauer (Künstliche Intell., 1993)

Robust and accurate hierarchical floorplanning with integrated global wiring. - Thomas Lengauer; Rolf Müller (IEEE Trans. Comput. Aided Des. Integr. Circuits Syst., 1993)

Robust methods for EMC-driven routing. - Dirk Theune; Ralf Thiele; Werner John; Thomas Lengauer (IEEE Trans. Comput. Aided Des. Integr. Circuits Syst., 1994)

EMC-driven midway routing on PCBs. - H. Schmidt; Dirk Theune; Ralf Thiele; Thomas Lengauer (ED&TC, 1995)

APPlaUSE: Area and performance optimization in a unified placement and synthesis environment. - Elof Frank; Thomas Lengauer (ICCAD, 1995)

Time-Efficient Docking of Flexible Ligands into Active Sites of Proteins. - Matthias Rarey; Bernd Kramer; Thomas Lengauer (ISMB, 1995)

Recursive Dynamic Programming for Adaptive Sequence and Structure Alignment. - Ralf Thiele; Ralf Zimmer; Thomas Lengauer (ISMB, 1995)

A simulated annealing approach to the nesting problem in the textile manufacturing industry. - Ralf Heckmann; Thomas Lengauer (Ann. Oper. Res., 1995)

The nesting problem in the leather manufacturing industry. - Jörg Heistermann; Thomas Lengauer (Ann. Oper. Res., 1995)

Computing Upper and Lower Bounds on Textile Nesting Problems. - Ralf Heckmann; Thomas Lengauer (ESA, 1996)

Time-Efficient Flexible Superposition of Medium-Sized Molecules and Molecular Fragments. - Christian Lemmen; Thomas Lengauer (German Conference on Bioinformatics, 1996)

Editorial: Informatik in den Biowissenschaften. - Ralf Hofestädt; Markus Löffler; Thomas Lengauer (Informationstechnik Tech. Inform., 1996)

Placement of medium-sized molecular fragments into active sites of proteins. - Matthias Rarey; Stephan Wefing; Thomas Lengauer (J. Comput. Aided Mol. Des., 1996)

An Algorithm for Finding Maximal Common Subtopologies in a Set of Protein Structures. - Ina Koch; Thomas Lengauer; Egon Wanke (J. Comput. Biol., 1996)

Algorithmen zum automatischen Zeichnen von Graphen im Rahmen des DFG-Schwerpunkts Effiziente Algorithmen für diskrete Probleme und ihre Anwendungen. - Franz-Josef Brandenburg; Michael Jünger; Petra Mutzel; Thomas Lengauer (GI Jahrestagung, 1997)

DFG-Schwerpunkt: Informatikmethoden zur Analyse und Interpretation großer genomischer Datenmengen. - Thomas Lengauer (GI Jahrestagung, 1997)

Parallel 'Go with the Winners' Algorithms in the LogP Model. - Marcus Peinado; Thomas Lengauer (IPPS, 1997)

Detection of Distant Structural Similarities in a Set of Proteins Using a Fast Graph-Based Method. - Ina Koch; Thomas Lengauer (ISMB, 1997)

'Go with the winners' Generators with Applications to Molecular Modeling. - Marcus Peinado; Thomas Lengauer (RANDOM, 1997)

Fast and numerically stable parametric alignment of biosequences. - Ralf Zimmer; Thomas Lengauer (RECOMB, 1997)

Time-efficient flexible superposition of medium-sized molecules. - Christian Lemmen; Thomas Lengauer (J. Comput. Aided Mol. Des., 1997)

Multiple automatic base selection: Protein-ligand docking based on incremental construction without manual intervention. - Matthias Rarey; Bernd Kramer; Thomas Lengauer (J. Comput. Aided Mol. Des., 1997)

Random Generation of Embedded Graphs and an Extension to Dobrushin Uniqueness (Extended Abstract). - Marcus Peinado; Thomas Lengauer (STOC, 1998)

Computing closely matching upper and lower bounds on textile nesting problems. - Ralf Heckmann; Thomas Lengauer (Eur. J. Oper. Res., 1998)

RigFit: A new approach to superimposing ligand molecules. - Christian Lemmen; Claus Hiller; Thomas Lengauer (J. Comput. Aided Mol. Des., 1998)

Pathway analysis in metabolic databases via differetial metabolic display (DMD). - Robert Küffner; Ralf Zimmer; Thomas Lengauer (German Conference on Bioinformatics, 1999)

Engineering Support Vector Machine Kerneis That Recognize Translation Initialion Sites. - Alexander Zien; Gunnar Rätsch; Sebastian Mika; Bernhard Schölkopf; Christian Lemmen; Alexander J. Smola; Thomas Lengauer; Klaus-Robert Müller (German Conference on Bioinformatics, 1999)

Application of Parameter Optimization to Molecular Comparison Problems. - Christian Lemmen; Alexander Zien; Ralf Zimmer; Thomas Lengauer (Pacific Symposium on Biocomputing, 1999)

Invited Lecture: Discrete Optimization Methods for Packing Problems in Two and Three Dimensions - With Applications in the Textile and Car Manufacturing Industries. - Thomas Lengauer (WG, 1999)

Editorial. The Seventh International Conference on Intelligent Systems for Molecular Biology (ISMB'99). - Thomas Lengauer (Bioinform., 1999)

Docking of hydrophobic ligands with interaction-based matching algorithms. - Matthias Rarey; Bernd Kramer; Thomas Lengauer (Bioinform., 1999)

Decision tree-based formation of consensus protein secondary structure prediction. - Joachim Selbig; Heinz-Theodor Mevissen; Thomas Lengauer (Bioinform., 1999)

Computational Biology - Algorithms and More. - Thomas Lengauer (ESA, 2000)

Bioinformatics Problems Along the Process Line from Genomic Data to New Drugs. - Thomas Lengauer (German Conference on Bioinformatics, 2000)

Analysis of Gene Expression Data with Pathway Scores. - Alexander Zien; Robert Küffner; Ralf Zimmer; Thomas Lengauer (ISMB, 2000)

Protein Structure Prediction Methods for Drug Design. - Thomas Lengauer; Ralf Zimmer (Briefings Bioinform., 2000)

Pathway analysis in metabolic databases via differential metabolic display (DMD). - Robert Küffner; Ralf Zimmer; Thomas Lengauer (Bioinform., 2000)

Engineering support vector machine kernels that recognize translation initiation sites. - Alexander Zien; Gunnar Rätsch; Sebastian Mika; Bernhard Schölkopf; Thomas Lengauer; Klaus-Robert Müller (Bioinform., 2000)

Computational methods for the structural alignment of molecules. - Christian Lemmen; Thomas Lengauer (J. Comput. Aided Mol. Des., 2000)

A Simple Iterative Approach to Parameter Optimization. - Alexander Zien; Ralf Zimmer; Thomas Lengauer (J. Comput. Biol., 2000)

Provably Good Global Routing of Integrated Circuits. - Thomas Lengauer; Martin Lügering (SIAM J. Optim., 2000)

Computational Biology at the Beginning of the Post-genomic Era. - Thomas Lengauer (Informatics, 2001)

Identifying drug resistance-associated patterns in HIV genotypes. - Niko Beerenwinkel; Barbara Schmidt; Hauke Walter; Rolf Kaiser; Thomas Lengauer; Daniel Hoffmann; Klaus Korn; Joachim Selbig (German Conference on Bioinformatics, 2001)

A new Method for Unification of Existing Protein Structure- and Sequence-Families. - Jan Freudenberg; Ralf Zimmer; Daniel Hanisch; Thomas Lengauer (German Conference on Bioinformatics, 2001)

Confidence Measures for Fold Recognition. - Ingolf Sommer; Niklas von Öhsen; Alexander Zien; Ralf Zimmer; Thomas Lengauer (German Conference on Bioinformatics, 2001)

Centralization: a new method for the normalization of gene expression data. - Alexander Zien; Thomas Aigner; Ralf Zimmer; Thomas Lengauer (ISMB (Supplement of Bioinformatics), 2001)

Geno2pheno: Interpreting Genotypic HIV Drug Resistance Tests. - Niko Beerenwinkel; Barbara Schmidt; Hauke Walter; Rolf Kaiser; Thomas Lengauer; Daniel Hoffmann; Klaus Korn; Joachim Selbig (IEEE Intell. Syst., 2001)

Editorial. - Thomas Lengauer (ECCB, 2002)

ECCB 2002 Organization. - Thomas Lengauer (ECCB, 2002)

Co-clustering of biological networks and gene expression data. - Daniel Hanisch; Alexander Zien; Ralf Zimmer; Thomas Lengauer (ISMB, 2002)

Confidence measures for protein fold recognition. - Ingolf Sommer; Alexander Zien; Niklas von Öhsen; Ralf Zimmer; Thomas Lengauer (Bioinform., 2002)

Improving fold recognition of protein threading by experimental distance constraints. - Mario Albrecht; Daniel Hanisch; Ralf Zimmer; Thomas Lengauer (Silico Biol., 2002)

A hypergraph-based method for unification of existing protein structure- and sequence-families. - Jan Freudenberg; Ralf Zimmer; Daniel Hanisch; Thomas Lengauer (Silico Biol., 2002)

ProML - the Protein Markup Language for specification of protein sequences, structures and families. - Daniel Hanisch; Ralf Zimmer; Thomas Lengauer (Silico Biol., 2002)

Flexible docking under pharmacophore type constraints. - Sally A. Hindle; Matthias Rarey; Christian Buning; Thomas Lengauer (J. Comput. Aided Mol. Des., 2002)

Preface: Special RECOMB 2001 Issue. - Thomas Lengauer (J. Comput. Biol., 2002)

Diversity and complexity of HIV-1 drug resistance: A bioinformatics approach to predicting phenotype from genotype. - Niko Beerenwinkel; Barbara Schmidt; Hauke Walter; Rolf Kaiser; Thomas Lengauer; Daniel Hoffmann; Klaus Korn; Joachim Selbig (Proc. Natl. Acad. Sci. USA, 2002)

Analyzing resistance phenomena in HIV with bioinformatics methods. - Thomas Lengauer (ECCB, 2003)

Methods for optimizing antiviral combination therapies. - Niko Beerenwinkel; Thomas Lengauer; Martin Däumer; Rolf Kaiser; Hauke Walter; Klaus Korn; Daniel Hoffmann; Joachim Selbig (ISMB (Supplement of Bioinformatics), 2003)

Pyranose Oxidase Identified as A Member of the GMC Oxidoreductase Family. - Mario Albrecht; Thomas Lengauer (Bioinform., 2003)

Disease-associated variants in PYPAF1 and NOD2 result in similar alterations of conserved sequence. - Mario Albrecht; Thomas Lengauer; Stefan Schreiber (Bioinform., 2003)

Microarrays: How Many Do You Need? - Alexander Zien; Juliane Fluck; Ralf Zimmer; Thomas Lengauer (J. Comput. Biol., 2003)

Parallel 'go with the winners' algorithms in distributed memory models. - Marcus Peinado; Thomas Lengauer (J. Parallel Distributed Comput., 2003)

Geno2pheno: estimating phenotypic drug resistance from HIV-1 genotypes. - Niko Beerenwinkel; Martin Däumer; Mark Oette; Klaus Korn; Daniel Hoffmann; Rolf Kaiser; Thomas Lengauer; Joachim Selbig; Hauke Walter (Nucleic Acids Res., 2003)

Learning Mixtures of Localized Rules by Maximizing the Area Under the ROC Curve. - Tobias Sing; Niko Beerenwinkel; Thomas Lengauer (ROCAI, 2004)

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources. - Torsten Crass; Iris Antes; Rico Basekow; Peer Bork; Christian Buning; Maik Christensen; Holger Claussen 002; Christian Ebeling; Peter Ernst; Valérie Gailus-Durner; Karl-Heinz Glatting; Rolf Gohla; et al. (Bioinform., 2004)

Arby: automatic protein structure prediction using profile-profile alignment and confidence measures. - Niklas von Öhsen; Ingolf Sommer; Ralf Zimmer; Thomas Lengauer (Bioinform., 2004)

Predicting protein structure classes from function predictions. - Ingolf Sommer; Jörg Rahnenführer; Francisco S. Domingues; Ulrik de Lichtenberg; Thomas Lengauer (Bioinform., 2004)

Ensemble Methods for Classification in Cheminformatics. - Christian Merkwirth; Harald Mauser; Tanja Schulz-Gasch; Olivier Roche; Martin Stahl; Thomas Lengauer (J. Chem. Inf. Model., 2004)

Decomposing protein networks into domain-domain interactions. - Mario Albrecht; Carola Huthmacher; Silvio C. E. Tosatto; Thomas Lengauer (ECCB/JBI, 2005)

Supervised and Unsupervised Approaches for Analyzing Covariation and Phenotypic Impact of HIV Drug Resistance Mutations. - Tobias Sing; Niko Beerenwinkel; Thomas Lengauer; Valentina Svicher; Francesca Ceccherini-Silberstein; Carlo-Federico Perno (LWA, 2005)

Characterization of Novel HIV Drug Resistance Mutations Using Clustering, Multidimensional Scaling and SVM-Based Feature Ranking. - 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; et al. (PKDD, 2005)

Mtreemix: a software package for learning and using mixture models of mutagenetic trees. - Niko Beerenwinkel; Jörg Rahnenführer; Rolf Kaiser; Daniel Hoffmann; Joachim Selbig; Thomas Lengauer (Bioinform., 2005)

Computational methods for the design of effective therapies against drug resistant HIV strains. - Niko Beerenwinkel; Tobias Sing; Thomas Lengauer; Jörg Rahnenführer; Kirsten Roomp; Igor Savenkov; Roman Fischer; Daniel Hoffmann; Joachim Selbig; Klaus Korn; Hauke Walter; Thomas Berg; et al. (Bioinform., 2005)

BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing. - Christoph Bock; Sabine Reither; Thomas Mikeska; Martina Paulsen; Jörn Walter; Thomas Lengauer (Bioinform., 2005)

Estimating cancer survival and clinical outcome based on genetic tumor progression scores. - Jörg Rahnenführer; Niko Beerenwinkel; Wolfgang A. Schulz; Christian Hartmann 006; Andreas von Deimling; Bernd Wullich; Thomas Lengauer (Bioinform., 2005)

ROCR: visualizing classifier performance in R. - Tobias Sing; Oliver Sander; Niko Beerenwinkel; Thomas Lengauer (Bioinform., 2005)

Confirmation of human protein interaction data by human expression data. - Andreas Hahn; Jörg Rahnenführer; Priti Talwar; Thomas Lengauer (BMC Bioinform., 2005)

The DFG Priority Program "Informatics Methods for the Analysis and Interpretation of Large Genomic Datasets". - Thomas Lengauer (it Inf. Technol., 2005)

Learning Multiple Evolutionary Pathways from Cross-Sectional Data. - Niko Beerenwinkel; Jörg Rahnenführer; Martin Däumer; Daniel Hoffmann; Rolf Kaiser; Joachim Selbig; Thomas Lengauer (J. Comput. Biol., 2005)

POEM: Parameter Optimization Using Ensemble Methods: Application to Target Specific Scoring Functions. - Iris Antes; Christian Merkwirth; Thomas Lengauer (J. Chem. Inf. Model., 2005)

Automatic Generation of Complementary Descriptors with Molecular Graph Networks. - Christian Merkwirth; Thomas Lengauer (J. Chem. Inf. Model., 2005)

Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV. - Kirsten Roomp; Niko Beerenwinkel; Tobias Sing; Eugen Schülter; Joachim Büch; Saleta Sierra-Aragon; Martin Däumer; Daniel Hoffmann; Rolf Kaiser; Thomas Lengauer; Joachim Selbig (DILS, 2006)

DynaPred: A structure and sequence based method for the prediction of MHC class I binding peptide sequences and conformations. - Iris Antes; Shirley W. I. Siu; Thomas Lengauer (ISMB (Supplement of Bioinformatics), 2006)

Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. - Adrian Alexa; Jörg Rahnenführer; Thomas Lengauer (Bioinform., 2006)

Computational recognition of potassium channel sequences. - Burkhard Heil; Jost Ludwig; Hella Lichtenberg-Fraté; Thomas Lengauer (Bioinform., 2006)

Recco: recombination analysis using cost optimization. - Jochen Maydt; Thomas Lengauer (Bioinform., 2006)

Editorial. - Andrew Ernest Torda; Thomas Lengauer (Bioinform., 2006)

Local protein structure prediction using discriminative models. - Oliver Sander; Ingolf Sommer; Thomas Lengauer (BMC Bioinform., 2006)

A new measure for functional similarity of gene products based on Gene Ontology. - Andreas Schlicker; Francisco S. Domingues; Jörg Rahnenführer; Thomas Lengauer (BMC Bioinform., 2006)

Improving the quality of protein structure models by selecting from alignment alternatives. - Ingolf Sommer; Stefano Toppo; Oliver Sander; Thomas Lengauer; Silvio C. E. Tosatto (BMC Bioinform., 2006)

NOXclass: prediction of protein-protein interaction types. - Hongbo Zhu 001; Francisco S. Domingues; Ingolf Sommer; Thomas Lengauer (BMC Bioinform., 2006)

Fully Automated Flexible Docking of Ligands into Flexible Synthetic Receptors Using Forward and Inverse Docking Strategies. - Andreas Kämper; Joannis Apostolakis; Matthias Rarey; Christel M. Marian; Thomas Lengauer (J. Chem. Inf. Model., 2006)

A Fully Computational Model for Predicting Percutaneous Drug Absorption. - Dirk Neumann 001; Oliver Kohlbacher; Christian Merkwirth; Thomas Lengauer (J. Chem. Inf. Model., 2006)

Flexible Docking of Ligands into Synthetic Receptors Using a Two-Sided Incremental Construction Algorithm. - Andreas Steffen; Andreas Kämper; Thomas Lengauer (J. Chem. Inf. Model., 2006)

Conformational analysis of alternative protein structures. - Francisco S. Domingues; Jörg Rahnenführer; Thomas Lengauer (Bioinform., 2007)

Functional evaluation of domain-domain interactions and human protein interaction networks. - Andreas Schlicker; Carola Huthmacher; Fidel Ramírez; Thomas Lengauer; Mario Albrecht (Bioinform., 2007)

Moment invariants as shape recognition technique for comparing protein binding sites. - Ingolf Sommer; Oliver Müller; Francisco S. Domingues; Oliver Sander; Joachim Weickert; Thomas Lengauer (Bioinform., 2007)

CpG Island Mapping by Epigenome Prediction. - Christoph Bock; Jörn Walter; Martina Paulsen; Thomas Lengauer (PLoS Comput. Biol., 2007)

ISMB/ECCB 2007: The Premier Conference on Computational Biology. - Thomas Lengauer; B. J. Morrison McKay; Burkhard Rost (PLoS Comput. Biol., 2007)

Structural Descriptors of gp120 V3 Loop for the Prediction of HIV-1 Coreceptor Usage. - Oliver Sander; Tobias Sing; Ingolf Sommer; Andrew J. Low; Peter K. Cheung; P. Richard Harrigan; Thomas Lengauer; Francisco S. Domingues (PLoS Comput. Biol., 2007)

Structural Descriptors of Protein-Protein Binding Sites. - Oliver Sander; Francisco S. Domingues; Hongbo Zhu 001; Thomas Lengauer; Ingolf Sommer (APBC, 2008)

Applications of semantic similarity measures. - Andreas Schlicker; Fidel Ramírez; Jörg Rahnenführer; Carola Huthmacher; Alejandro Pironti; Francisco S. Domingues; Thomas Lengauer; Mario Albrecht (Ontologies and Text Mining for Life Sciences, 2008)

An integrative approach for predicting interactions of protein regions. - Sven-Eric Schelhorn; Thomas Lengauer; Mario Albrecht (ECCB, 2008)

Multi-task learning for HIV therapy screening. - Steffen Bickel; Jasmina Bogojeska; Thomas Lengauer; Tobias Scheffer (ICML, 2008)

Selecting anti-HIV therapies based on a variety of genomic and clinical factors. - Michal Rosen-Zvi; André Altmann; Mattia Prosperi; Ehud Aharoni; Hani Neuvirth; Anders Sönnerborg; Eugen Schülter; Daniel Struck; Yardena Peres; Francesca Incardona; Rolf Kaiser; Maurizio Zazzi; et al. (ISMB, 2008)

Computing topological parameters of biological networks. - Yassen Assenov; Fidel Ramírez; Sven-Eric Schelhorn; Thomas Lengauer; Mario Albrecht (Bioinform., 2008)

Computational epigenetics. - Christoph Bock; Thomas Lengauer (Bioinform., 2008)

Rtreemix: an R package for estimating evolutionary pathways and genetic progression scores. - Jasmina Bogojeska; Adrian Alexa; André Altmann; Thomas Lengauer; Jörg Rahnenführer (Bioinform., 2008)

Integrating expression data with domain interaction networks. - Dorothea Emig; Melissa S. Cline; Thomas Lengauer; Mario Albrecht (Bioinform., 2008)

Stability analysis of mixtures of mutagenetic trees. - Jasmina Bogojeska; Thomas Lengauer; Jörg Rahnenführer (BMC Bioinform., 2008)

Integrative Visual Analysis of the Effects of Alternative Splicing on Protein Domain Interaction Networks. - Dorothea Emig; Melissa S. Cline; Karsten Klein 001; Anne Kunert; Petra Mutzel; Thomas Lengauer; Mario Albrecht (J. Integr. Bioinform., 2008)

Local Function Conservation in Sequence and Structure Space. - Nils Weinhold; Oliver Sander; Francisco S. Domingues; Thomas Lengauer; Ingolf Sommer (PLoS Comput. Biol., 2008)

Semi-Supervised Learning for Improving Prediction of HIV Drug Resistance. - Juliane Perner; André Altmann; Thomas Lengauer (GCB, 2009)

DASMI: exchanging, annotating and assessing molecular interaction data. - Hagen Blankenburg; Robert D. Finn; Andreas Prlic; Andrew M. Jenkinson; Fidel Ramírez; Dorothea Emig; Sven-Eric Schelhorn; Joachim Büch; Thomas Lengauer; Mario Albrecht (Bioinform., 2009)

Bioinformatische Unterstützung der Auswahl von HIV-Therapien. - Thomas Lengauer; André Altmann; Alexander Thielen (Inform. Spektrum, 2009)

Permutation importance: a corrected feature importance measure. - André Altmann; Laura Tolosi; Oliver Sander; Thomas Lengauer (Bioinform., 2010)

Dealing with sparse data in predicting outcomes of HIV combination therapies. - Jasmina Bogojeska; Steffen Bickel; André Altmann; Thomas Lengauer (Bioinform., 2010)

Improving disease gene prioritization using the semantic similarity of Gene Ontology terms. - Andreas Schlicker; Thomas Lengauer; Mario Albrecht (Bioinform., 2010)

Predicting MHC class I epitopes in large datasets. - Kirsten Roomp; Iris Antes; Thomas Lengauer (BMC Bioinform., 2010)

Chasing the AIDS virus. - Thomas Lengauer; André Altmann; Alexander Thielen; Rolf Kaiser (Commun. ACM, 2010)

AltAnalyze and DomainGraph: analyzing and visualizing exon expression data. - Dorothea Emig; Nathan Salomonis; Jan Baumbach; Thomas Lengauer; Bruce R. Conklin; Mario Albrecht (Nucleic Acids Res., 2010)

Classification with correlated features: unreliability of feature ranking and solutions. - Laura Tolosi; Thomas Lengauer (Bioinform., 2011)

Genotypic tropism testing by massively parallel sequencing: qualitative and quantitative analysis. - Martin Däumer; Rolf Kaiser; Rolf Klein; Thomas Lengauer; Bernhard Thiele; Alexander Thielen (BMC Medical Informatics Decis. Mak., 2011)

BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing. - Pavlo Lutsik; Lars Feuerbach; Julia Arand; Thomas Lengauer; Jörn Walter; Christoph Bock (Nucleic Acids Res., 2011)

Improving HIV coreceptor usage prediction in the clinic using hints from next-generation sequencing data. - Nico Pfeifer; Thomas Lengauer (Bioinform., 2012)

Paving the future: finding suitable ISMB venues. - Burkhard Rost; Terry Gaasterland; Thomas Lengauer; Michal Linial; Scott Markel; B. J. Morrison McKay; Reinhard Schneider 002; Paul Horton; Janet Kelso (Bioinform., 2012)

On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking. - Matthias Dietzen; Elena Zotenko; Andreas Hildebrandt 001; Thomas Lengauer (J. Chem. Inf. Model., 2012)

History-alignment models for bias-aware prediction of virological response to HIV combination therapy. - Jasmina Bogojeska; Daniel Stöckel; Maurizio Zazzi; Rolf Kaiser; Francesca Incardona; Michal Rosen-Zvi; Thomas Lengauer (AISTATS, 2012)

A method for finding consensus breakpoints in the cancer genome from copy number data. - Laura Tolosi; Jessica Theißen; Konstantin Halachev; Barbara Hero; Frank Berthold; Thomas Lengauer (Bioinform., 2013)

Analysis of Physicochemical and Structural Properties Determining HIV-1 Coreceptor Usage. - Katarzyna Bozek; Thomas Lengauer; Saleta Sierra; Rolf Kaiser; Francisco S. Domingues (PLoS Comput. Biol., 2013)

New Methods Section in PLOS Computational Biology. - Thomas Lengauer; Ruth Nussinov (PLoS Comput. Biol., 2013)

Sensitive Detection of Viral Transcripts in Human Tumor Transcriptomes. - Sven-Eric Schelhorn; Matthias Fischer 003; Laura Tolosi; Janine Altmüller; Peter Nürnberg; Herbert Pfister; Thomas Lengauer; Frank Berthold (PLoS Comput. Biol., 2013)

Efficient computation of root mean square deviations under rigid transformations. - Anna Katharina Hildebrandt; Matthias Dietzen; Thomas Lengauer; Hans-Peter Lenhof; Ernst Althaus; Andreas Hildebrandt 001 (J. Comput. Chem., 2014)

Entropy gain due to water release upon ligand binding. - Mazen Ahmad; Olga V. Kalinina; Thomas Lengauer (J. Cheminformatics, 2014)

Correction to On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking. - Matthias Dietzen; Elena Zotenko; Andreas Hildebrandt 001; Thomas Lengauer (J. Chem. Inf. Model., 2014)

BiQ Analyzer HiMod: an interactive software tool for high-throughput locus-specific analysis of 5-methylcytosine and its oxidized derivatives. - Daniel Becker 006; Pavlo Lutsik; Peter Ebert; Christoph Bock; Thomas Lengauer; Jörn Walter (Nucleic Acids Res., 2014)

A general concept for consistent documentation of computational analyses. - Peter Ebert; Fabian Müller 001; Karl Nordström; Thomas Lengauer; Marcel H. Schulz (Database J. Biol. Databases Curation, 2015)

Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus. - Peter D. Karp; Bonnie Berger; Diane E. Kovats; Thomas Lengauer; Michal Linial; Pardis Sabeti; Winston Hide; Burkhard Rost (Bioinform., 2015)

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus. - Peter D. Karp; Bonnie Berger; Diane E. Kovats; Thomas Lengauer; Michal Linial; Pardis Sabeti; Winston Hide; Burkhard Rost (PLoS Comput. Biol., 2015)

How to Write a Presubmission Inquiry. - Thomas Lengauer; Ruth Nussinov (PLoS Comput. Biol., 2015)

DeepBlue epigenomic data server: programmatic data retrieval and analysis of epigenome region sets. - Felipe Albrecht; Markus List; Christoph Bock; Thomas Lengauer (Nucleic Acids Res., 2016)

ISCB's Initial Reaction to The New England Journal of Medicine Editorial on Data Sharing. - Bonnie Berger; Terry Gaasterland; Thomas Lengauer; Christine A. Orengo; Bruno Gaëta; Scott Markel; Alfonso Valencia (PLoS Comput. Biol., 2016)

DeepBlueR: large-scale epigenomic analysis in R. - Felipe Albrecht; Markus List; Christoph Bock; Thomas Lengauer (Bioinform., 2017)

ISCB's initial reaction to New England Journal of Medicine editorial on data sharing. - Bonnie Berger; Terry Gaasterland; Thomas Lengauer; Christine A. Orengo; Bruno Gaëta; Scott Markel; Alfonso Valencia (Bioinform., 2017)

Selecting optimal minimum spanning trees that share a topological correspondence with phylogenetic trees. - Prabhav Kalaghatgi; Thomas Lengauer (CoRR, 2017)

Computing phylogenetic trees using topologically related minimum spanning trees. - Prabhav Kalaghatgi; Thomas Lengauer (J. Graph Algorithms Appl., 2017)

geno2pheno[ngs-freq]: a genotypic interpretation system for identifying viral drug resistance using next-generation sequencing data. - Matthias Döring; Joachim Büch; Georg Friedrich; Alejandro Pironti; Prabhav Kalaghatgi; Elena Knops; Eva Heger; Martin Obermeier; Martin Däumer; Alexander Thielen; Rolf Kaiser; Thomas Lengauer; et al. (Nucleic Acids Res., 2018)

Incorporating temporal dynamics of mutations to enhance the prediction capability of antiretroviral therapy's outcome for HIV-1. - Giulia Di Teodoro; Martin Pirkl; Francesca Incardona; Ilaria Vicenti; Anders Sönnerborg; Rolf Kaiser; Laura Palagi; Maurizio Zazzi; Thomas Lengauer (CoRR, 2023)