| 2020 | ACL | Dialogue Coherence Assessment Without Explicit Dialogue Act Labels. | Mohsen Mesgar, Sebastian Bcker, Iryna Gurevych |
| 2018 | WABI | Heuristic Algorithms for the Maximum Colorful Subtree Problem. | Kai Dhrkop, Marie Anne Lataretu, W. Timothy J. White, Sebastian Bcker |
| 2017 | ACML | Magnitude-Preserving Ranking for Structured Outputs. | Cline Brouard, Eric Bach, Sebastian Bcker, Juho Rousu |
| 2017 | Networking | SoDA: Enabling CDN-ISP collaboration with software defined anycast. | Matthias Wichtlhuber, Jan Kessler, Sebastian Bcker, Ingmar Poese, Jeremias Blendin, Christian Koch, David Hausheer |
| 2016 | LCN | Of Strategies and Structures: Motif-Based Fingerprinting Analysis of Online Reputation Networks. | Matthias Wichtlhuber, Sebastian Bcker, Roland Kluge, Mahdi Mousavi, David Hausheer |
| 2015 | COCOON | Speedy Colorful Subtrees. | W. Timothy J. White, Stephan Beyer, Kai Dhrkop, Markus Chimani, Sebastian Bcker |
| 2015 | RECOMB | Fragmentation Trees Reloaded. | Kai Dhrkop, Sebastian Bcker |
| 2014 | DATA | Explorative Analysis of Heterogeneous, Unstructured, and Uncertain Data - A Computer Science Perspective on Biodiversity Research. | Clemens Beckstein, Sebastian Bcker, Martin Bogdan, Helge Bruelheide, H. Martin Bcker, Joachim Denzler, Peter Dittrich, Ivo Grosse, Alexander Hinneburg, Birgitta Knig-Ries, Felicitas Lffler, Manja Marz, Matthias Mller-Hannemann, Martin Winter, Wolf Zimmermann |
| 2014 | WABI | Multiple Mass Spectrometry Fragmentation Trees Revisited: Boosting Performance and Quality. | Kerstin Scheubert, Franziska Hufsky, Sebastian Bcker |
| 2013 | CiE | Cluster Editing. | Sebastian Bcker, Jan Baumbach |
| 2013 | WABI | The Generalized Robinson-Foulds Metric. | Sebastian Bcker, Stefan Canzar, Gunnar W. Klau |
| 2013 | WABI | Faster Mass Decomposition. | Kai Dhrkop, Marcus Ludwig, Marvin Meusel, Sebastian Bcker |
| 2012 | RECOMB | Finding Maximum Colorful Subtrees in Practice. | Imran Rauf, Florian Rasche, Franois Nicolas, Sebastian Bcker |
| 2011 | ALENEX | A Closer Look at the Closest String and Closest Substring Problem. | Markus Chimani, Matthias Woste, Sebastian Bcker |
| 2011 | COCOON | FlipCut Supertrees: Towards Matrix Representation Accuracy in Polynomial Time. | Malte Brinkmeyer, Thasso Griebel, Sebastian Bcker |
| 2011 | IWOCA | A Golden Ratio Parameterized Algorithm for Cluster Editing. | Sebastian Bcker |
| 2011 | RECOMB | Computing Fragmentation Trees from Metabolite Multiple Mass Spectrometry Data. | Kerstin Scheubert, Franziska Hufsky, Florian Rasche, Sebastian Bcker |
| 2010 | WABI | Swiftly Computing Center Strings. | Franziska Hufsky, Lon Kuchenbecker, Katharina Jahn, Jens Stoye, Sebastian Bcker |
| 2009 | COCOON | Computing Bond Types in Molecule Graphs. | Sebastian Bcker, Quang Bao Anh Bui, Patrick Seeber, Anke Tru |
| 2009 | COCOON | Determination of Glycan Structure from Tandem Mass Spectra. | Sebastian Bcker, Birte Kehr, Florian Rasche |
| 2009 | COCOON | Inferring Peptide Composition from Molecular Formulas. | Sebastian Bcker, Anton Pervukhin |
| 2009 | WABI | Annotating Fragmentation Patterns. | Sebastian Bcker, Florian Rasche, Tamara Steijger |
| 2008 | APBC | A Fixed-Parameter Approach for Weighted Cluster Editing. | Sebastian Bcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Tru |
| 2008 | COCOA | Going Weighted: Parameterized Algorithms for Cluster Editing. | Sebastian Bcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Tru |
| 2008 | ECCB | Towards | Sebastian Bcker, Florian Rasche |
| 2008 | ICONIP | Improved Mass Spectrometry Peak Intensity Prediction by Adaptive Feature Weighting. | Alexandra Scherbart, Wiebke Timm, Sebastian Bcker, Tim W. Nattkemper |
| 2008 | RECOMB | Computation of Median Gene Clusters. | Sebastian Bcker, Katharina Jahn, Julia Mixtacki, Jens Stoye |
| 2007 | ICANN | Neural Network Approach for Mass Spectrometry Prediction by Peptide Prototyping. | Alexandra Scherbart, Wiebke Timm, Sebastian Bcker, Tim W. Nattkemper |
| 2006 | RECOMB | Markov Additive Chains and Applications to Fragment Statistics for Peptide Mass Fingerprinting. | Hans-Michael Kaltenbach, Sebastian Bcker, Sven Rahmann |
| 2006 | WABI | Decomposing Metabolomic Isotope Patterns. | Sebastian Bcker, Matthias C. Letzel, Zsuzsanna Liptk, Anton Pervukhin |
| 2005 | COCOON | The Money Changing Problem Revisited: Computing the Frobenius Number in Time O(k a | Sebastian Bcker, Zsuzsanna Liptk |
| 2005 | CPM | Mass Spectra Alignments and Their Significance. | Sebastian Bcker, Hans-Michael Kaltenbach |
| 2005 | SAC | Efficient mass decomposition. | Sebastian Bcker, Zsuzsanna Liptk |
| 2003 | ISMB | SNP and mutation discovery using base-specific cleavage and MALDI-TOF mass spectrometry. | Sebastian Bcker |
| 2003 | WABI | Sequencing from Compomers: Using Mass Spectrometry for DNA De-Novo Sequencing of 200+ nt. | Sebastian Bcker |