Gunnar W. Klau

ORCID

Publication Activity (10 Years)

Years Active: 1998-2024
Publications (10 Years): 15

Top Venues

Saarland University, Saarbrücken, Germany (PHD)

Education History

Saarland University, Saarbrücken, Germany

PHD

Publications

Nguyen Khoa Tran, Laura C. Kühle, Gunnar W. Klau
A critical review of multi-output support vector regression. Pattern Recognit. Lett. 178 (2024)
Martin Stroet, Bertrand Caron, Martin S. Engler, Jimi van der Woning, Aude Kauffmann, Marc van Dijk, Mohammed El-Kebir, Koen Visscher, Josef Holownia, Callum Macfarlane, Brian J. Bennion, Svetlana Gelpi-Dominguez, Felice C. Lightstone, Tijs van der Storm, Daan P. Geerke, Alan E. Mark, Gunnar W. Klau
OFraMP: a fragment-based tool to facilitate the parametrization of large molecules. J. Comput. Aided Mol. Des. 37 (8) (2023)
Sven Schrinner, Manish Goel, Michael Wulfert, Philipp Spohr, Korbinian Schneeberger, Gunnar W. Klau
Using the longest run subsequence problem within homology-based scaffolding. Algorithms Mol. Biol. 16 (1) (2021)
Gunnar W. Klau
The Lost Recipes from the Four Schools of Amathus. SOFSEM (2020)
Sven Schrinner, Manish Goel, Michael Wulfert, Philipp Spohr, Korbinian Schneeberger, Gunnar W. Klau
The Longest Run Subsequence Problem. WABI (2020)
Martin S. Engler, Bertrand Caron, Lourens Veen, Daan P. Geerke, Alan E. Mark, Gunnar W. Klau
Automated partial atomic charge assignment for drug-like molecules: a fast knapsack approach. Algorithms Mol. Biol. 14 (1) (2019)
Philipp Spohr, Kasper Dinkla, Gunnar W. Klau, Mohammed El-Kebir
eXamine: Visualizing annotated networks in Cytoscape. F1000Research 7 (2018)
Martin S. Engler, Bertrand Caron, Lourens Veen, Daan P. Geerke, Alan E. Mark, Gunnar W. Klau
Multiple-Choice Knapsack for Assigning Partial Atomic Charges in Drug-Like Molecules. WABI (2018)
Simone Zaccaria, Mohammed El-Kebir, Gunnar W. Klau, Benjamin J. Raphael
Phylogenetic Copy-Number Factorization of Multiple Tumor Samples. J. Comput. Biol. 25 (7) (2018)
Simone Zaccaria, Mohammed El-Kebir, Gunnar W. Klau, Benjamin J. Raphael
The Copy-Number Tree Mixture Deconvolution Problem and Applications to Multi-sample Bulk Sequencing Tumor Data. RECOMB (2017)
Gunnar W. Klau, Tobias Marschall
A Guided Tour to Computational Haplotyping. CiE (2017)
Gunnar W. Klau
Networks to the Rescue - From Big "Omics" Data to Targeted Hypotheses. ERCIM News 2016 (104) (2016)
Paola Bonizzoni, Riccardo Dondi, Gunnar W. Klau, Yuri Pirola, Nadia Pisanti, Simone Zaccaria
On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes. J. Comput. Biol. 23 (9) (2016)
Ali May, Bernd W. Brandt, Mohammed El-Kebir, Gunnar W. Klau, Egija Zaura, Wim Crielaard, Jaap Heringa, Sanne Abeln
metaModules identifies key functional subnetworks in microbiome-related disease. Bioinform. 32 (11) (2016)
Yuri Pirola, Simone Zaccaria, Riccardo Dondi, Gunnar W. Klau, Nadia Pisanti, Paola Bonizzoni
HapCol: accurate and memory-efficient haplotype assembly from long reads. Bioinform. 32 (11) (2016)
Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau, Alexander Schönhuth
WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads. J. Comput. Biol. 22 (6) (2015)
Rumen Andonov, Hristo N. Djidjev, Gunnar W. Klau, Mathilde Le Boudic-Jamin, Inken Wohlers
Automatic Classification of Protein Structure Using the Maximum Contact Map Overlap Metric. Algorithms 8 (4) (2015)
Stefan Canzar, Sandro Andreotti, David Weese, Knut Reinert, Gunnar W. Klau
CIDANE: Comprehensive Isoform Discovery and Abundance Estimation. RECOMB (2015)
Robin Cijvat, Stefan Manegold, Martin L. Kersten, Gunnar W. Klau, Alexander Schönhuth, Tobias Marschall, Ying Zhang
Genome sequence analysis with MonetDB - A case study on Ebola virus diversity. Datenbank-Spektrum 15 (3) (2015)
Mohammed El-Kebir, Hayssam Soueidan, Thomas Hume, Daniela Beisser, Marcus T. Dittrich, Tobias Müller, Guillaume Blin, Jaap Heringa, Macha Nikolski, Lodewyk F. A. Wessels, Gunnar W. Klau
xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model. Bioinform. 31 (19) (2015)
Robin Cijvat, Stefan Manegold, Martin L. Kersten, Gunnar W. Klau, Alexander Schönhuth, Tobias Marschall, Ying Zhang
Genome sequence analysis with monetdb: a case study on ebola virus diversity. BTW Workshops (2015)
Stefan Canzar, Khaled M. Elbassioni, Gunnar W. Klau, Julián Mestre
On Tree-Constrained Matchings and Generalizations. Algorithmica 71 (1) (2015)
Paola Bonizzoni, Riccardo Dondi, Gunnar W. Klau, Yuri Pirola, Nadia Pisanti, Simone Zaccaria
On the Fixed Parameter Tractability and Approximability of the Minimum Error Correction Problem. CPM (2015)
Thomas Bellitto, Tobias Marschall, Alexander Schönhuth, Gunnar W. Klau
Next generation cluster editing. PeerJ Prepr. 3 (2015)
Mohammed El-Kebir, Jaap Heringa, Gunnar W. Klau
Natalie 2.0: Sparse Global Network Alignment as a Special Case of Quadratic Assignment. Algorithms 8 (4) (2015)
Kasper Dinkla, Mohammed El-Kebir, Cristina-Iulia Bucur, Marco Siderius, Martine J. Smit, Michel A. Westenberg, Gunnar W. Klau
eXamine: Exploring annotated modules in networks. CoRR (2014)
Mohammed El-Kebir, Gunnar W. Klau
Solving the Maximum-Weight Connected Subgraph Problem to Optimality. CoRR (2014)
Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau, Alexander Schönhuth
WhatsHap: Haplotype Assembly for Future-Generation Sequencing Reads. RECOMB (2014)
Inken Wohlers, Mathilde Le Boudic-Jamin, Hristo N. Djidjev, Gunnar W. Klau, Rumen Andonov
Exact Protein Structure Classification Using the Maximum Contact Map Overlap Metric. AlCoB (2014)
Mohammed El-Kebir, Bernd W. Brandt, Jaap Heringa, Gunnar W. Klau
A web server for protein-protein interaction network querying. BMC Syst. Biol. 8 (2014)
Kasper Dinkla, Mohammed El-Kebir, Cristina-Iulia Bucur, Marco Siderius, Martine J. Smit, Michel A. Westenberg, Gunnar W. Klau
eXamine: Exploring annotated modules in networks. BMC Bioinform. 15 (2014)
Sebastian Böcker, Gunnar W. Klau, Veli Mäkinen, Hon Wai Leong
Towards the ground truth: Exact algorithms for bioinformatics research (NII Shonan Meeting 2014-2). NII Shonan Meet. Rep. 2014 (2014)
Mohammed El-Kebir, Tobias Marschall, Inken Wohlers, Murray Patterson, Jaap Heringa, Alexander Schönhuth, Gunnar W. Klau
Mapping proteins in the presence of paralogs using units of coevolution. BMC Bioinform. 14 (S-15) (2013)
Holger Fröhlich, Gunnar W. Klau
Reconstructing Consensus Bayesian Network Structures with Application to Learning Molecular Interaction Networks. GCB (2013)
Inken Wohlers, Rumen Andonov, Gunnar W. Klau
DALIX: Optimal DALI Protein Structure Alignment. IEEE ACM Trans. Comput. Biol. Bioinform. 10 (1) (2013)
Sebastian Böcker, Stefan Canzar, Gunnar W. Klau
The generalized Robinson-Foulds metric. CoRR (2013)
Thomas Bellitto, Tobias Marschall, Alexander Schönhuth, Gunnar W. Klau
Next Generation Cluster Editing. CoRR (2013)
Stefan Canzar, Mohammed El-Kebir, René Pool, Khaled M. Elbassioni, Alan E. Mark, Daan P. Geerke, Leen Stougie, Gunnar W. Klau
Charge Group Partitioning in Biomolecular Simulation. J. Comput. Biol. 20 (3) (2013)
Sebastian Böcker, Stefan Canzar, Gunnar W. Klau
The Generalized Robinson-Foulds Metric. WABI (2013)
Kasper Dinkla, Mohammed El-Kebir, Cristina-Iulia Bucur, Marco Siderius, Martine J. Smit, Michel A. Westenberg, Gunnar W. Klau
eXamine: a Cytoscape app for exploring annotated modules in networks. CoRR (2013)
Sandro Andreotti, Gunnar W. Klau, Knut Reinert
Antilope - A Lagrangian Relaxation Approach to the de novo Peptide Sequencing Problem. IEEE ACM Trans. Comput. Biol. Bioinform. 9 (2) (2012)
Inken Wohlers, Noël Malod-Dognin, Rumen Andonov, Gunnar W. Klau
CSA: comprehensive comparison of pairwise protein structure alignments. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Daniela Beisser, Stefan Brunkhorst, Thomas Dandekar, Gunnar W. Klau, Marcus T. Dittrich, Tobias Müller
Robustness and accuracy of functional modules in integrated network analysis. Bioinform. 28 (14) (2012)
Stefan Canzar, Mohammed El-Kebir, René Pool, Khaled M. Elbassioni, Alpeshkumar K. Malde, Alan E. Mark, Daan P. Geerke, Leen Stougie, Gunnar W. Klau
Charge Group Partitioning in Biomolecular Simulation. RECOMB (2012)
Tobias Marschall, Ivan G. Costa, Stefan Canzar, Markus Bauer, Gunnar W. Klau, Alexander Schliep, Alexander Schönhuth
CLEVER: clique-enumerating variant finder. Bioinform. 28 (22) (2012)
Daniela Beisser, Markus A. Grohme, Joachim Kopka, Marcus Frohme, Ralph O. Schill, Steffen Hengherr, Thomas Dandekar, Gunnar W. Klau, Marcus T. Dittrich, Tobias Müller
Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum. BMC Syst. Biol. 6 (2012)
Inken Wohlers, Rumen Andonov, Gunnar W. Klau
Algorithm engineering for optimal alignment of protein structure distance matrices. Optim. Lett. 5 (3) (2011)
Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau
Exact Algorithms for Cluster Editing: Evaluation and Experiments. Algorithmica 60 (2) (2011)
Mohammed El-Kebir, Jaap Heringa, Gunnar W. Klau
Lagrangian Relaxation Applied to Sparse Global Network Alignment CoRR (2011)
Mohammed El-Kebir, Jaap Heringa, Gunnar W. Klau
Lagrangian Relaxation Applied to Sparse Global Network Alignment. PRIB (2011)
Stefan Canzar, Nora C. Toussaint, Gunnar W. Klau
An exact algorithm for side-chain placement in protein design. Optim. Lett. 5 (3) (2011)
Stefan Canzar, Nora C. Toussaint, Gunnar W. Klau
An Exact Algorithm for Side-Chain Placement in Protein Design CoRR (2011)
Antonio Mucherino, Inken Wohlers, Gunnar W. Klau, Rumen Andonov
Sparsifying Distance Matrices for Protein-Protein Structure Alignments. CTW (2011)
Stefan Canzar, Khaled M. Elbassioni, Gunnar W. Klau, Julián Mestre
On Tree-Constrained Matchings and Generalizations. ICALP (1) (2011)
Sandro Andreotti, Gunnar W. Klau, Knut Reinert
Antilope - A Lagrangian Relaxation Approach to the de novo Peptide Sequencing Problem CoRR (2011)
Christine Staiger, Sidney Cadot, R. Kooter, Marcus T. Dittrich, Tobias Müller, Gunnar W. Klau, Lodewyk F. A. Wessels
A critical evaluation of network and pathway based classifiers for outcome prediction in breast cancer CoRR (2011)
Gunnar W. Klau, Neal Lesh, Joe Marks, Michael Mitzenmacher
Human-guided search. J. Heuristics 16 (3) (2010)
Inken Wohlers, Francisco S. Domingues, Gunnar W. Klau
Towards optimal alignment of protein structure distance matrices. Bioinform. 26 (18) (2010)
Gunnar W. Klau, Jacques Nicolas
Introduction to the Special Theme: Computational Biology. ERCIM News 2010 (82) (2010)
Daniela Beisser, Gunnar W. Klau, Thomas Dandekar, Tobias Müller, Marcus T. Dittrich
BioNet: an R-Package for the functional analysis of biological networks. Bioinform. 26 (8) (2010)
Gunnar W. Klau
A new graph-based method for pairwise global network alignment. BMC Bioinform. 10 (S-1) (2009)
Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau
On optimal comparability editing with applications to molecular diagnostics. BMC Bioinform. 10 (S-1) (2009)
Ernst Althaus, Gunnar W. Klau, Oliver Kohlbacher, Hans-Peter Lenhof, Knut Reinert
Integer Linear Programming in Computational Biology. Efficient Algorithms (2009)
Inken Wohlers, Lars Petzold, Francisco S. Domingues, Gunnar W. Klau
PAUL: protein structural alignment using integer linear programming and Lagrangian relaxation. BMC Bioinform. 10 (S-13) (2009)
Inken Wohlers, Lars Petzold, Francisco S. Domingues, Gunnar W. Klau
Aligning Protein Structures Using Distance Matrices and Combinatorial Optimization. GCB (2009)
Annette Kik, Gunnar W. Klau
Fighting Lymph Cancer with Mathematics. ERCIM News 2009 (77) (2009)
Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau
Exact Algorithms for Cluster Editing: Evaluation and Experiments. WEA (2008)
Markus Bauer, Gunnar W. Klau, Knut Reinert
An Exact Mathematical Programming Approach to Multiple RNA Sequence-Structure Alignment. Algorithmic Oper. Res. 3 (2) (2008)
Marcus T. Dittrich, Gunnar W. Klau, Andreas Rosenwald, Thomas Dandekar, Tobias Müller
Identifying functional modules in protein-protein interaction networks: an integrated exact approach. ISMB (2008)
Christoph Buchheim, Markus Chimani, Dietmar Ebner, Carsten Gutwenger, Michael Jünger, Gunnar W. Klau, Petra Mutzel, René Weiskircher
A branch-and-cut approach to the crossing number problem. Discret. Optim. 5 (2) (2008)
Gunnar W. Klau, Sven Rahmann, Alexander Schliep, Martin Vingron, Knut Reinert
Integer linear programming approaches for non-unique probe selection. Discret. Appl. Math. 155 (6-7) (2007)
Markus Bauer, Gunnar W. Klau, Knut Reinert
Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization. BMC Bioinform. 8 (2007)
Knut Reinert, Markus Bauer, Andreas Döring, Gunnar W. Klau, Aaron L. Halpern
A General Paradigm for Fast, Adaptive Clustering of Biological Sequences. German Conference on Bioinformatics (2007)
Patrick May, Gunnar W. Klau, Markus Bauer, Thomas Steinke
Accelerated microRNA-Precursor Detection Using the Smith-Waterman Algorithm on FPGAs. GCCB (2006)
Christian A. Duncan, Gunnar W. Klau, Stephen G. Kobourov, Georg Sander
Graph-Drawing Contest Report. Graph Drawing (2006)
Ivana Ljubic, René Weiskircher, Ulrich Pferschy, Gunnar W. Klau, Petra Mutzel, Matteo Fischetti
An Algorithmic Framework for the Exact Solution of the Prize-Collecting Steiner Tree Problem. Math. Program. 105 (2-3) (2006)
Sven Rahmann, Gunnar W. Klau
Integer Linear Programs for Discovering Approximate Gene Clusters. WABI (2006)
Ivana Ljubic, René Weiskircher, Ulrich Pferschy, Gunnar W. Klau, Petra Mutzel, Matteo Fischetti
Solving the Prize-Collecting Steiner Tree Problem to Optimality. ALENEX/ANALCO (2005)
Markus Bauer, Gunnar W. Klau, Knut Reinert
Fast and Accurate Structural RNA Alignment by Progressive Lagrangian Optimization. CompLife (2005)
Markus Chimani, Gunnar W. Klau, René Weiskircher
Non-planar Orthogonal Drawings with Fixed Topology. SOFSEM (2005)
Markus Bauer, Gunnar W. Klau, Knut Reinert
Multiple Structural RNA Alignment with Lagrangian Relaxation. WABI (2005)
Christoph Buchheim, Dietmar Ebner, Michael Jünger, Gunnar W. Klau, Petra Mutzel, René Weiskircher
Exact Crossing Minimization. Graph Drawing (2005)
Gunnar W. Klau, Ivana Ljubic, Andreas Moser, Petra Mutzel, Philipp Neuner, Ulrich Pferschy, Günther R. Raidl, René Weiskircher
Combining a Memetic Algorithm with Integer Programming to Solve the Prize-Collecting Steiner Tree Problem. GECCO (1) (2004)
Gunnar W. Klau, René Weiskircher
Robustness and Resilience. Network Analysis (2004)
Markus Bauer, Gunnar W. Klau
Structural Alignment of Two RNA Sequences with Lagrangian Relaxation. ISAAC (2004)
Gunnar W. Klau, Sven Rahmann, Alexander Schliep, Martin Vingron, Knut Reinert
Optimal robust non-unique probe selection using Integer Linear Programming. ISMB/ECCB (Supplement of Bioinformatics) (2004)
Dietmar Ebner, Gunnar W. Klau, René Weiskircher
Label Number Maximization in the Slider Model. Graph Drawing (2004)
Gunnar W. Klau, Petra Mutzel
Optimal labeling of point features in rectangular labeling models. Math. Program. 94 (2-3) (2003)
Gunnar W. Klau, Ivana Ljubic, Petra Mutzel, Ulrich Pferschy, René Weiskircher
The Fractional Prize-Collecting Steiner Tree Problem on Trees: Extended Abstract. ESA (2003)
Gunnar W. Klau, Neal Lesh, Joe Marks, Michael Mitzenmacher, Guy T. Schafer
The HuGS platform: a toolkit for interactive optimization. AVI (2002)
Gunnar W. Klau
A Combinatorial Approach to Orthogonal Placement Problems. OR (2002)
Stacey D. Scott, Neal Lesh, Gunnar W. Klau
Investigating human-computer optimization. CHI (2002)
Gunnar W. Klau, Neal Lesh, Joe Marks, Michael Mitzenmacher
Human-Guided Tabu Search. AAAI/IAAI (2002)
Carsten Gutwenger, Michael Jünger, Gunnar W. Klau, Sebastian Leipert, Petra Mutzel
Graph Drawing Algorithm Engineering with AGD. Software Visualization (2001)
Carsten Gutwenger, Michael Jünger, Gunnar W. Klau, Sebastian Leipert, Petra Mutzel, René Weiskircher
AGD: A Library of Algorithms for Graph Drawing. Graph Drawing (2001)
Gunnar W. Klau, Petra Mutzel
Optimal Labelling of Point Features in the Slider Model. COCOON (2000)
Gunnar W. Klau, Karsten Klein, Petra Mutzel
An Experimental Comparison of Orthogonal Compaction Algorithms (Extended Abstract). Graph Drawing (2000)
Gunnar W. Klau, Petra Mutzel
Optimal Compaction of Orthogonal Grid Drawings. IPCO (1999)
Markus Eiglsperger, Sándor P. Fekete, Gunnar W. Klau
Orthogonal Graph Drawing. Drawing Graphs (1999)
Gunnar W. Klau, Petra Mutzel
Combining Graph Labeling and Compaction. Graph Drawing (1999)

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Publication Activity (10 Years)

Top Topics

Top Venues

Gunnar W. Klau