Sebastian Böcker

ORCID

Publication Activity (10 Years)

Years Active: 2000-2021
Publications (10 Years): 16

Top Venues

Publications

Sebastian Böcker, Rebekah L. Gundry, Lennart Martens, Magnus Palmblad
Computational Proteomics (Dagstuhl Seminar 21271). Dagstuhl Reports 11 (6) (2021)
Sebastian Böcker, Corey Broeckling, Emma Schymanski, Nicola Zamboni
Computational Metabolomics: From Cheminformatics to Machine Learning (Dagstuhl Seminar 20051). Dagstuhl Reports 10 (1) (2020)
Marcus Ludwig, Louis-Félix Nothias, Kai Dührkop, Irina Koester, Markus Fleischauer, Martin A. Hoffmann, Daniel Petras, Fernando Vargas, Mustafa Morsy, Lihini Aluwihare, Pieter C. Dorrestein, Sebastian Böcker
Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. Nat. Mach. Intell. 2 (10) (2020)
Marcus Ludwig, Louis-Félix Nothias, Kai Dührkop, Irina Koester, Markus Fleischauer, Martin A. Hoffmann, Daniel Petras, Fernando Vargas, Mustafa Morsy, Lihini Aluwihare, Pieter C. Dorrestein, Sebastian Böcker
Publisher Correction: Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. Nat. Mach. Intell. 2 (11) (2020)
Marcus Ludwig, Kai Dührkop, Sebastian Böcker
Bayesian networks for mass spectrometric metabolite identification via molecular fingerprints. Bioinform. 34 (13) (2018)
Kai Dührkop, Marie Anne Lataretu, W. Timothy J. White, Sebastian Böcker
Heuristic algorithms for the Maximum Colorful Subtree problem. CoRR (2018)
Kai Dührkop, Marie Anne Lataretu, W. Timothy J. White, Sebastian Böcker
Heuristic Algorithms for the Maximum Colorful Subtree Problem. WABI (2018)
Eric Bach, Sándor Szedmák, Céline Brouard, Sebastian Böcker, Juho Rousu
Liquid-chromatography retention order prediction for metabolite identification. Bioinform. 34 (17) (2018)
Theodore Alexandrov, Sebastian Böcker, Pieter C. Dorrestein, Emma Schymanski
Computational Metabolomics: Identification, Interpretation, Imaging (Dagstuhl Seminar 17491). Dagstuhl Reports 7 (12) (2017)
Eudes Barbosa, Richard Röttger, Anne-Christin Hauschild, Siomar de Castro Soares, Sebastian Böcker, Vasco Azevedo, Jan Baumbach
LifeStyle-Specific-Islands (LiSSI): Integrated Bioinformatics Platform for Genomic Island Analysis. J. Integr. Bioinform. 14 (2) (2017)
W. Timothy J. White, Marcus Ludwig, Sebastian Böcker
) space. CoRR (2017)
Masanori Arita, Sebastian Böcker, Steffen Neumann
Computational Metabolomics (NII Shonan Meeting 2017-3). NII Shonan Meet. Rep. 2017 (2017)
Emma Schymanski, Christoph Ruttkies, Martin Krauss, Céline Brouard, Tobias Kind, Kai Dührkop, Felicity Allen, Arpana Vaniya, Dries Verdegem, Sebastian Böcker, Juho Rousu, Huibin Shen, Hiroshi Tsugawa, Tanvir Sajed, Oliver Fiehn, Bart Ghesquière, Steffen Neumann
Critical Assessment of Small Molecule Identification 2016: automated methods. J. Cheminformatics 9 (1) (2017)
Céline Brouard, Eric Bach, Sebastian Böcker, Juho Rousu
Magnitude-Preserving Ranking for Structured Outputs. ACML (2017)
Céline Brouard, Huibin Shen, Kai Dührkop, Florence d'Alché-Buc, Sebastian Böcker, Juho Rousu
Fast metabolite identification with Input Output Kernel Regression. Bioinform. 32 (12) (2016)
Sebastian Böcker, Kai Dührkop
Fragmentation trees reloaded. J. Cheminformatics 8 (1) (2016)
Sebastian Böcker
Ten Times Eighteen. J. Inf. Process. 23 (3) (2015)
W. Timothy J. White, Stephan Beyer, Kai Dührkop, Markus Chimani, Sebastian Böcker
Speedy Colorful Subtrees. COCOON (2015)
Markus Fleischauer, Sebastian Böcker
Collecting reliable clades using the Greedy Strict Consensus Merger. PeerJ Prepr. 3 (2015)
Sebastian Böcker, Juho Rousu, Emma Schymanski
Computational Metabolomics (Dagstuhl Seminar 15492). Dagstuhl Reports 5 (11) (2015)
Kai Dührkop, Sebastian Böcker
Fragmentation Trees Reloaded. RECOMB (2015)
Huibin Shen, Kai Dührkop, Sebastian Böcker, Juho Rousu
Metabolite identification through multiple kernel learning on fragmentation trees. Bioinform. 30 (12) (2014)
Kai Dührkop, Sebastian Böcker
Fragmentation trees reloaded. CoRR (2014)
Kerstin Scheubert, Franziska Hufsky, Sebastian Böcker
Multiple Mass Spectrometry Fragmentation Trees Revisited: Boosting Performance and Quality. WABI (2014)
Clemens Beckstein, Sebastian Böcker, Martin Bogdan, Helge Bruehlheide, H. Martin Bücker, Joachim Denzler, Peter Dittrich, Ivo Grosse, Alexander Hinneburg, Birgitta König-Ries, Felicitas Löffler, Manja Marz, Matthias Müller-Hannemann, Martin Winter, Wolf Zimmermann
Explorative Analysis of Heterogeneous, Unstructured, and Uncertain Data - A Computer Science Perspective on Biodiversity Research. DATA (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)
Kerstin Scheubert, Franziska Hufsky, Sebastian Böcker
Computational mass spectrometry for small molecules. J. Cheminformatics 5 (2013)
Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker
FlipCut Supertrees: Towards Matrix Representation Accuracy in Polynomial Time. Algorithmica 67 (2) (2013)
Sebastian Böcker, Jan Baumbach
Cluster Editing. CiE (2013)
Kai Dührkop, Marcus Ludwig, Marvin Meusel, Sebastian Böcker
Faster Mass Decomposition. WABI (2013)
Katharina Jahn, Sascha Winter, Jens Stoye, Sebastian Böcker
Statistics for approximate gene clusters. BMC Bioinform. 14 (S-15) (2013)
Sebastian Böcker, Stefan Canzar, Gunnar W. Klau
The generalized Robinson-Foulds metric. CoRR (2013)
Imran Rauf, Florian Rasche, François Nicolas, Sebastian Böcker
Finding Maximum Colorful Subtrees in Practice. J. Comput. Biol. 20 (4) (2013)
Sebastian Böcker, Stefan Canzar, Gunnar W. Klau
The Generalized Robinson-Foulds Metric. WABI (2013)
Franziska Hufsky, Sebastian Böcker
Comparing Fragmentation Trees from Electron Impact Mass Spectra with Annotated Fragmentation Pathways. GCB (2012)
Sebastian Böcker
Ten times eighteen CoRR (2012)
Imran Rauf, Florian Rasche, François Nicolas, Sebastian Böcker
Finding Maximum Colorful Subtrees in Practice. RECOMB (2012)
Sebastian Böcker, Quang Bao Anh Bui, Anke Truß
Improved Fixed-Parameter Algorithms for Minimum-Flip Consensus Trees. ACM Trans. Algorithms 8 (1) (2012)
Sebastian Böcker
A golden ratio parameterized algorithm for Cluster Editing. J. Discrete Algorithms 16 (2012)
Marcus Ludwig, Franziska Hufsky, Samy Elshamy, Sebastian Böcker
Finding Characteristic Substructures for Metabolite Classes. GCB (2012)
Franziska Hufsky, Kai Dührkop, Florian Rasche, Markus Chimani, Sebastian Böcker
Fast alignment of fragmentation trees. Bioinform. 28 (12) (2012)
Sebastian Böcker, Peter Damaschke
A note on the parameterized complexity of unordered maximum tree orientation. Discret. Appl. Math. 160 (10-11) (2012)
Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker
FlipCut Supertrees: Towards Matrix Representation Accuracy in Polynomial Time. COCOON (2011)
Markus Chimani, Matthias Woste, Sebastian Böcker
A Closer Look at the Closest String and Closest Substring Problem. ALENEX (2011)
Sebastian Böcker
A Golden Ratio Parameterized Algorithm for Cluster Editing. IWOCA (2011)
Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau
Exact Algorithms for Cluster Editing: Evaluation and Experiments. Algorithmica 60 (2) (2011)
Sebastian Böcker, Quang Bao Anh Bui, François Nicolas, Anke Truß
Intractability of the Minimum-Flip Supertree problem and its variants CoRR (2011)
Tobias Wittkop, Sven Rahmann, Richard Röttger, Sebastian Böcker, Jan Baumbach
Extension and Robustness of Transitivity Clustering for Protein-Protein Interaction Network Analysis. Internet Math. 7 (4) (2011)
Anna Katharina Dehof, Alexander Rurainski, Quang Bao Anh Bui, Sebastian Böcker, Hans-Peter Lenhof, Andreas Hildebrandt
Automated bond order assignment as an optimization problem. Bioinform. 27 (5) (2011)
Franziska Hufsky, Léon Kuchenbecker, Katharina Jahn, Jens Stoye, Sebastian Böcker
Swiftly Computing Center Strings. BMC Bioinform. 12 (2011)
Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker
Polynomial Supertree Methods Revisited. Adv. Bioinformatics 2011 (2011)
Sebastian Böcker, Quang Bao Anh Bui, Anke Truß
Computing bond orders in molecule graphs. Theor. Comput. Sci. 412 (12-14) (2011)
Kerstin Scheubert, Franziska Hufsky, Florian Rasche, Sebastian Böcker
Computing Fragmentation Trees from Metabolite Multiple Mass Spectrometry Data. RECOMB (2011)
Sebastian Böcker, Peter Damaschke
Even faster parameterized cluster deletion and cluster editing. Inf. Process. Lett. 111 (14) (2011)
Kerstin Scheubert, Franziska Hufsky, Florian Rasche, Sebastian Böcker
Computing Fragmentation Trees from Metabolite Multiple Mass Spectrometry Data. J. Comput. Biol. 18 (11) (2011)
Sebastian Böcker
Towards a Data Reduction for the Minimum Flip Supertree Problem CoRR (2011)
François Nicolas, Sebastian Böcker
Various complexity results for computational mass spectrometry problems CoRR (2011)
Sebastian Böcker, Birte Kehr, Florian Rasche
Determination of Glycan Structure from Tandem Mass Spectra. IEEE ACM Trans. Comput. Biol. Bioinform. 8 (4) (2011)
Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker
Polynomial Supertree Methods Revisited. PRIB (2010)
Franziska Hufsky, Léon Kuchenbecker, Katharina Jahn, Jens Stoye, Sebastian Böcker
Swiftly Computing Center Strings. WABI (2010)
Markus Chimani, Sven Rahmann, Sebastian Böcker
Exact ILP solutions for phylogenetic minimum flip problems. BCB (2010)
Sebastian Böcker, Birte Kehr, Florian Rasche
Determination of Glycan Structure from Tandem Mass Spectra. COCOON (2009)
Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau
On optimal comparability editing with applications to molecular diagnostics. BMC Bioinform. 10 (S-1) (2009)
Sebastian Böcker, Florian Rasche, Tamara Steijger
Annotating Fragmentation Patterns. WABI (2009)
Sebastian Böcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Truß
Going weighted: Parameterized algorithms for cluster editing. Theor. Comput. Sci. 410 (52) (2009)
Sebastian Böcker, Falk Hüffner, Anke Truß, Magnus Wahlström
A Faster Fixed-Parameter Approach to Drawing Binary Tanglegrams. IWPEC (2009)
Sebastian Böcker, Anton Pervukhin
Inferring Peptide Composition from Molecular Formulas. COCOON (2009)
Sebastian Böcker, Quang Bao Anh Bui, Patrick Seeber, Anke Truß
Computing Bond Types in Molecule Graphs. COCOON (2009)
Sebastian Böcker, Matthias C. Letzel, Zsuzsanna Lipták, Anton Pervukhin
SIRIUS: decomposing isotope patterns for metabolite identification. Bioinform. 25 (2) (2009)
Sebastian Böcker, Katharina Jahn, Julia Mixtacki, Jens Stoye
Computation of Median Gene Clusters. J. Comput. Biol. 16 (8) (2009)
Sebastian Böcker, Katharina Jahn, Julia Mixtacki, Jens Stoye
Computation of Median Gene Clusters. RECOMB (2008)
Alexandra Scherbart, Wiebke Timm, Sebastian Böcker, Tim W. Nattkemper
Improved Mass Spectrometry Peak Intensity Prediction by Adaptive Feature Weighting. ICONIP (1) (2008)
Sebastian Böcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Truß
Going Weighted: Parameterized Algorithms for Cluster Editing. COCOA (2008)
Thasso Griebel, Malte Brinkmeyer, Sebastian Böcker
EPoS: a modular software framework for phylogenetic analysis. Bioinform. 24 (20) (2008)
Sebastian Böcker, Veli Mäkinen
Combinatorial Approaches for Mass Spectra Recalibration. IEEE ACM Trans. Comput. Biol. Bioinform. 5 (1) (2008)
Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau
Exact Algorithms for Cluster Editing: Evaluation and Experiments. WEA (2008)
Sebastian Böcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Truß
A Fixed-Parameter Approach for Weighted Cluster Editing. APBC (2008)
Sebastian Böcker, Florian Rasche
identification of metabolites by analyzing tandem mass spectra. ECCB (2008)
Sebastian Böcker, Florian Rasche
Towards de novo identification of metabolites by analyzing tandem mass spectra. Computational Proteomics (2008)
Wiebke Timm, Alexandra Scherbart, Sebastian Böcker, Oliver Kohlbacher, Tim W. Nattkemper
Peak intensity prediction in MALDI-TOF mass spectrometry: A machine learning study to support quantitative proteomics. BMC Bioinform. 9 (2008)
Sebastian Böcker, Zsuzsanna Lipták, Marcel Martin, Anton Pervukhin, Henner Sudek
DECOMP - from interpreting Mass Spectrometry peaks to solving the Money Changing Problem. Bioinform. 24 (4) (2008)
Sebastian Böcker, Quang Bao Anh Bui, Anke Truß
An Improved Fixed-Parameter Algorithm for Minimum-Flip Consensus Trees. IWPEC (2008)
Alexandra Scherbart, Wiebke Timm, Sebastian Böcker, Tim W. Nattkemper
Neural Network Approach for Mass Spectrometry Prediction by Peptide Prototyping. ICANN (2) (2007)
Sebastian Böcker
Simulating multiplexed SNP discovery rates using base-specific cleavage and mass spectrometry. Bioinform. 23 (2) (2007)
Sebastian Böcker, Hans-Michael Kaltenbach
Mass spectra alignments and their significance. J. Discrete Algorithms 5 (4) (2007)
Sebastian Böcker, Zsuzsanna Lipták
A Fast and Simple Algorithm for the Money Changing Problem. Algorithmica 48 (4) (2007)
Hans-Michael Kaltenbach, Andreas Wilke, Sebastian Böcker
SAMPI: Protein Identification with Mass Spectra Alignments. BMC Bioinform. 8 (2007)
Sebastian Böcker
Sequencing from Compomers: The Puzzle. Theory Comput. Syst. 39 (3) (2006)
Hans-Michael Kaltenbach, Sebastian Böcker, Sven Rahmann
Markov Additive Chains and Applications to Fragment Statistics for Peptide Mass Fingerprinting. Systems Biology and Computational Proteomics (2006)
Sebastian Böcker, Matthias C. Letzel, Zsuzsanna Lipták, Anton Pervukhin
Decomposing Metabolomic Isotope Patterns. WABI (2006)
Sebastian Böcker, Zsuzsanna Lipták
Efficient mass decomposition. SAC (2005)
Sebastian Böcker, Veli Mäkinen
Maximum line-pair stabbing problem and its variations. EuroCG (2005)
Sebastian Böcker, Hans-Michael Kaltenbach
Mass Spectra Alignments and Their Significance. CPM (2005)
Sebastian Böcker, Veli Mäkinen
Combinatorial Approaches for Mass Spectra Recalibration. Computational Proteomics (2005)
Sebastian Böcker, Zsuzsanna Lipták
). COCOON (2005)
Sebastian Böcker
Sequencing from Compomers: Using Mass Spectrometry for DNA de novo Sequencing of 200+ nt. J. Comput. Biol. 11 (6) (2004)
Sebastian Böcker
Weighted Sequencing from Compomers: DNA de-novo sequencing from mass spectrometry data in the presence of false negative constraints. German Conference on Bioinformatics (2004)
Sebastian Böcker
Sequencing from Compomers: Using Mass Spectrometry for DNA De-Novo Sequencing of 200+ nt. WABI (2003)
Sebastian Böcker
SNP and mutation discovery using base-specific cleavage and MALDI-TOF mass spectrometry. ISMB (Supplement of Bioinformatics) (2003)
Sebastian Böcker
Exponentially many supertrees. Appl. Math. Lett. 15 (7) (2002)

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Publication Activity (10 Years)

Top Topics

Top Venues

Sebastian Böcker