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Semantic ScholarSebastian Böcker
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- affiliation: Friedrich-Schiller-Universität, Jena, Germany
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2010 – today
- 2018
[j40]Marcus Ludwig, Kai Dührkop, Sebastian Böcker:
Bayesian networks for mass spectrometric metabolite identification via molecular fingerprints. Bioinformatics 34(13): i333-i340 (2018)- [j39]Eric Bach, Sándor Szedmák, Céline Brouard, Sebastian Böcker, Juho Rousu:
Liquid-chromatography retention order prediction for metabolite identification. Bioinformatics 34(17): i875-i883 (2018) - [c40]Kai Dührkop, Marie Anne Lataretu, W. Timothy J. White, Sebastian Böcker:
Heuristic Algorithms for the Maximum Colorful Subtree Problem. WABI 2018: 23:1-23:14 - [i15]Kai Dührkop, Marie Anne Lataretu, W. Timothy J. White, Sebastian Böcker:
Heuristic algorithms for the Maximum Colorful Subtree problem. CoRR abs/1801.07456 (2018) - 2017
- [j38]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): 22:1-22:21 (2017) - [c39]Céline Brouard, Eric Bach, Sebastian Böcker, Juho Rousu:
Magnitude-Preserving Ranking for Structured Outputs. ACML 2017: 407-422 - [i14]W. Timothy J. White, Marcus Ludwig, Sebastian Böcker:
Cograph Editing in O(3nn) time and O(2n) space. CoRR abs/1711.05839 (2017) - [i13]Theodore Alexandrov, Sebastian Böcker, Pieter C. Dorrestein, Emma Schymanski:
Computational Metabolomics: Identification, Interpretation, Imaging (Dagstuhl Seminar 17491). Dagstuhl Reports 7(12): 1-17 (2017) - 2016
- [j37]Céline Brouard, Huibin Shen, Kai Dührkop, Florence d'Alché-Buc, Sebastian Böcker, Juho Rousu:
Fast metabolite identification with Input Output Kernel Regression. Bioinformatics 32(12): 28-36 (2016) - [j36]Sebastian Böcker, Kai Dührkop:
Fragmentation trees reloaded. J. Cheminformatics 8(1): 5:1-5:26 (2016) - 2015
- [j35]
- [c38]W. Timothy J. White, Stephan Beyer, Kai Dührkop, Markus Chimani, Sebastian Böcker:
Speedy Colorful Subtrees. COCOON 2015: 310-322 - [c37]
- [i12]Sebastian Böcker, Juho Rousu, Emma Schymanski:
Computational Metabolomics (Dagstuhl Seminar 15492). Dagstuhl Reports 5(11): 180-192 (2015) - [i11]Markus Fleischauer, Sebastian Böcker:
Collecting reliable clades using the Greedy Strict Consensus Merger. PeerJ PrePrints 3: e1297 (2015) - 2014
- [j34]Huibin Shen, Kai Dührkop, Sebastian Böcker, Juho Rousu:
Metabolite identification through multiple kernel learning on fragmentation trees. Bioinformatics 30(12): 157-164 (2014) - [c36]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: 251-257 - [c35]Kerstin Scheubert, Franziska Hufsky, Sebastian Böcker:
Multiple Mass Spectrometry Fragmentation Trees Revisited: Boosting Performance and Quality. WABI 2014: 217-231 - [i10]
- [i9]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) - 2013
- [j33]Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker:
FlipCut Supertrees: Towards Matrix Representation Accuracy in Polynomial Time. Algorithmica 67(2): 142-160 (2013) - [j32]Katharina Jahn, Sascha Winter, Jens Stoye, Sebastian Böcker:
Statistics for approximate gene clusters. BMC Bioinformatics 14(S-15): S14 (2013) - [j31]Imran Rauf, Florian Rasche, François Nicolas, Sebastian Böcker:
Finding Maximum Colorful Subtrees in Practice. Journal of Computational Biology 20(4): 311-321 (2013) - [j30]Kerstin Scheubert, Franziska Hufsky, Sebastian Böcker:
Computational mass spectrometry for small molecules. J. Cheminformatics 5: 12 (2013) - [c34]
- [c33]Kai Dührkop, Marcus Ludwig, Marvin Meusel, Sebastian Böcker:
Faster Mass Decomposition. WABI 2013: 45-58 - [c32]Sebastian Böcker, Stefan Canzar, Gunnar W. Klau:
The Generalized Robinson-Foulds Metric. WABI 2013: 156-169 - [i8]Sebastian Böcker, Stefan Canzar, Gunnar W. Klau:
The generalized Robinson-Foulds metric. CoRR abs/1307.7824 (2013) - 2012
- [j29]Franziska Hufsky, Kai Dührkop, Florian Rasche, Markus Chimani, Sebastian Böcker:
Fast alignment of fragmentation trees. Bioinformatics 28(12): 265-273 (2012) - [j28]Sebastian Böcker, Peter Damaschke:
A note on the parameterized complexity of unordered maximum tree orientation. Discrete Applied Mathematics 160(10-11): 1634-1638 (2012) - [j27]Sebastian Böcker:
A golden ratio parameterized algorithm for Cluster Editing. J. Discrete Algorithms 16: 79-89 (2012) - [j26]Sebastian Böcker, Quang Bao Anh Bui, Anke Truß:
Improved Fixed-Parameter Algorithms for Minimum-Flip Consensus Trees. ACM Trans. Algorithms 8(1): 7:1-7:17 (2012) - [c31]Franziska Hufsky, Sebastian Böcker:
Comparing Fragmentation Trees from Electron Impact Mass Spectra with Annotated Fragmentation Pathways. GCB 2012: 12-22 - [c30]Marcus Ludwig, Franziska Hufsky, Samy Elshamy, Sebastian Böcker:
Finding Characteristic Substructures for Metabolite Classes. GCB 2012: 23-38 - [c29]Imran Rauf, Florian Rasche, François Nicolas, Sebastian Böcker:
Finding Maximum Colorful Subtrees in Practice. RECOMB 2012: 213-223 - [e1]Sebastian Böcker, Franziska Hufsky, Kerstin Scheubert, Jana Schleicher, Stefan Schuster:
German Conference on Bioinformatics 2012, GCB 2012, Jena, Germany, September 20-22, 2012. OASICS 26, Schloss Dagstuhl - Leibniz-Zentrum fuer Informatik 2012, ISBN 978-3-939897-44-6 [contents] - [i7]
- 2011
- [j25]Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker:
Polynomial Supertree Methods Revisited. Adv. Bioinformatics 2011: 524182:1-524182:21 (2011) - [j24]Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau:
Exact Algorithms for Cluster Editing: Evaluation and Experiments. Algorithmica 60(2): 316-334 (2011) - [j23]Anna Katharina Dehof, Alexander Rurainski, Quang Bao Anh Bui, Sebastian Böcker, Hans-Peter Lenhof, Andreas Hildebrandt:
Automated bond order assignment as an optimization problem. Bioinformatics 27(5): 619-625 (2011) - [j22]Franziska Hufsky, Léon Kuchenbecker, Katharina Jahn, Jens Stoye, Sebastian Böcker:
Swiftly Computing Center Strings. BMC Bioinformatics 12: 106 (2011) - [j21]Tobias Wittkop, Sven Rahmann, Richard Röttger, Sebastian Böcker, Jan Baumbach:
Extension and Robustness of Transitivity Clustering for Protein-Protein Interaction Network Analysis. Internet Mathematics 7(4): 255-273 (2011) - [j20]Sebastian Böcker, Peter Damaschke:
Even faster parameterized cluster deletion and cluster editing. Inf. Process. Lett. 111(14): 717-721 (2011) - [j19]Kerstin Scheubert, Franziska Hufsky, Florian Rasche, Sebastian Böcker:
Computing Fragmentation Trees from Metabolite Multiple Mass Spectrometry Data. Journal of Computational Biology 18(11): 1383-1397 (2011) - [j18]Sebastian Böcker, Birte Kehr, Florian Rasche:
Determination of Glycan Structure from Tandem Mass Spectra. IEEE/ACM Trans. Comput. Biology Bioinform. 8(4): 976-986 (2011) - [j17]Sebastian Böcker, Quang Bao Anh Bui, Anke Truß:
Computing bond orders in molecule graphs. Theor. Comput. Sci. 412(12-14): 1184-1195 (2011) - [c28]Markus Chimani, Matthias Woste, Sebastian Böcker:
A Closer Look at the Closest String and Closest Substring Problem. ALENEX 2011: 13-24 - [c27]Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker:
FlipCut Supertrees: Towards Matrix Representation Accuracy in Polynomial Time. COCOON 2011: 37-48 - [c26]
- [c25]Kerstin Scheubert, Franziska Hufsky, Florian Rasche, Sebastian Böcker:
Computing Fragmentation Trees from Metabolite Multiple Mass Spectrometry Data. RECOMB 2011: 377-391 - [i6]Sebastian Böcker:
Towards a Data Reduction for the Minimum Flip Supertree Problem. CoRR abs/1104.4471 (2011) - [i5]François Nicolas, Sebastian Böcker:
Various complexity results for computational mass spectrometry problems. CoRR abs/1109.3367 (2011) - [i4]Sebastian Böcker, Quang Bao Anh Bui, François Nicolas, Anke Truß:
Intractability of the Minimum-Flip Supertree problem and its variants. CoRR abs/1112.4536 (2011) - 2010
- [c24]Markus Chimani, Sven Rahmann, Sebastian Böcker:
Exact ILP solutions for phylogenetic minimum flip problems. BCB 2010: 147-153 - [c23]Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker:
Polynomial Supertree Methods Revisited. PRIB 2010: 183-194 - [c22]Franziska Hufsky, Léon Kuchenbecker, Katharina Jahn, Jens Stoye, Sebastian Böcker:
Swiftly Computing Center Strings. WABI 2010: 325-336
2000 – 2009
- 2009
- [j16]Sebastian Böcker, Matthias C. Letzel, Zsuzsanna Lipták, Anton Pervukhin:
SIRIUS: decomposing isotope patterns for metabolite identification. Bioinformatics 25(2): 218-224 (2009) - [j15]Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau:
On optimal comparability editing with applications to molecular diagnostics. BMC Bioinformatics 10(S-1) (2009) - [j14]Sebastian Böcker, Katharina Jahn, Julia Mixtacki, Jens Stoye:
Computation of Median Gene Clusters. Journal of Computational Biology 16(8): 1085-1099 (2009) - [j13]Sebastian Böcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Truß:
Going weighted: Parameterized algorithms for cluster editing. Theor. Comput. Sci. 410(52): 5467-5480 (2009) - [c21]Sebastian Böcker, Birte Kehr, Florian Rasche:
Determination of Glycan Structure from Tandem Mass Spectra. COCOON 2009: 258-267 - [c20]Sebastian Böcker, Anton Pervukhin:
Inferring Peptide Composition from Molecular Formulas. COCOON 2009: 277-286 - [c19]Sebastian Böcker, Quang Bao Anh Bui, Patrick Seeber, Anke Truß:
Computing Bond Types in Molecule Graphs. COCOON 2009: 297-306 - [c18]Sebastian Böcker, Falk Hüffner, Anke Truß, Magnus Wahlström:
A Faster Fixed-Parameter Approach to Drawing Binary Tanglegrams. IWPEC 2009: 38-49 - [c17]Sebastian Böcker, Florian Rasche, Tamara Steijger:
Annotating Fragmentation Patterns. WABI 2009: 13-24 - 2008
- [j12]Sebastian Böcker, Zsuzsanna Lipták, Marcel Martin, Anton Pervukhin, Henner Sudek:
DECOMP - from interpreting Mass Spectrometry peaks to solving the Money Changing Problem. Bioinformatics 24(4): 591-593 (2008) - [j11]Thasso Griebel, Malte Brinkmeyer, Sebastian Böcker:
EPoS: a modular software framework for phylogenetic analysis. Bioinformatics 24(20): 2399-2400 (2008) - [j10]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 Bioinformatics 9 (2008) - [j9]Sebastian Böcker, Veli Mäkinen:
Combinatorial Approaches for Mass Spectra Recalibration. IEEE/ACM Trans. Comput. Biology Bioinform. 5(1): 91-100 (2008) - [c16]Sebastian Böcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Truß:
A Fixed-Parameter Approach for Weighted Cluster Editing. APBC 2008: 211-220 - [c15]Sebastian Böcker, Sebastian Briesemeister, Quang Bao Anh Bui, Anke Truß:
Going Weighted: Parameterized Algorithms for Cluster Editing. COCOA 2008: 1-12 - [c14]Sebastian Böcker, Florian Rasche:
Towards de novo identification of metabolites by analyzing tandem mass spectra. ECCB 2008: 49-55 - [c13]Alexandra Scherbart, Wiebke Timm, Sebastian Böcker, Tim W. Nattkemper:
Improved Mass Spectrometry Peak Intensity Prediction by Adaptive Feature Weighting. ICONIP (1) 2008: 513-520 - [c12]Sebastian Böcker, Quang Bao Anh Bui, Anke Truß:
An Improved Fixed-Parameter Algorithm for Minimum-Flip Consensus Trees. IWPEC 2008: 43-54 - [c11]Sebastian Böcker, Katharina Jahn, Julia Mixtacki, Jens Stoye:
Computation of Median Gene Clusters. RECOMB 2008: 331-345 - [c10]Sebastian Böcker, Sebastian Briesemeister, Gunnar W. Klau:
Exact Algorithms for Cluster Editing: Evaluation and Experiments. WEA 2008: 289-302 - [i3]Sebastian Böcker, Florian Rasche:
Towards de novo identification of metabolites by analyzing tandem mass spectra. Computational Proteomics 2008 - 2007
- [j8]Sebastian Böcker, Zsuzsanna Lipták:
A Fast and Simple Algorithm for the Money Changing Problem. Algorithmica 48(4): 413-432 (2007) - [j7]Sebastian Böcker:
Simulating multiplexed SNP discovery rates using base-specific cleavage and mass spectrometry. Bioinformatics 23(2): 5-12 (2007) - [j6]Hans-Michael Kaltenbach, Andreas Wilke, Sebastian Böcker:
SAMPI: Protein Identification with Mass Spectra Alignments. BMC Bioinformatics 8 (2007) - [j5]Sebastian Böcker, Hans-Michael Kaltenbach:
Mass spectra alignments and their significance. J. Discrete Algorithms 5(4): 714-728 (2007) - [c9]Alexandra Scherbart, Wiebke Timm, Sebastian Böcker, Tim W. Nattkemper:
Neural Network Approach for Mass Spectrometry Prediction by Peptide Prototyping. ICANN (2) 2007: 90-99 - 2006
- [j4]
- [c8]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: 29-41 - [c7]Sebastian Böcker, Matthias C. Letzel, Zsuzsanna Lipták, Anton Pervukhin:
Decomposing Metabolomic Isotope Patterns. WABI 2006: 12-23 - 2005
- [c6]Sebastian Böcker, Zsuzsanna Lipták:
The Money Changing Problem Revisited: Computing the Frobenius Number in Time O(k a1). COCOON 2005: 965-974 - [c5]Sebastian Böcker, Hans-Michael Kaltenbach:
Mass Spectra Alignments and Their Significance. CPM 2005: 429-441 - [c4]
- [i2]Sebastian Böcker, Veli Mäkinen:
Combinatorial Approaches for Mass Spectra Recalibration. Computational Proteomics 2005 - [i1]Sebastian Böcker, Veli Mäkinen:
Maximum line-pair stabbing problem and its variations. EuroCG 2005: 183-186 - 2004
- [j3]Sebastian Böcker:
Sequencing from Compomers: Using Mass Spectrometry for DNA de novo Sequencing of 200+ nt. Journal of Computational Biology 11(6): 1110-1134 (2004) - [c3]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: 13-24 - 2003
- [c2]Sebastian Böcker:
SNP and mutation discovery using base-specific cleavage and MALDI-TOF mass spectrometry. ISMB (Supplement of Bioinformatics) 2003: 44-53 - [c1]Sebastian Böcker:
Sequencing from Compomers: Using Mass Spectrometry for DNA De-Novo Sequencing of 200+ nt. WABI 2003: 476-497 - 2002
- [j2]
- 2000
- [j1]Sebastian Böcker, David Bryant, Andreas W. M. Dress, Mike A. Steel:
Algorithmic Aspects of Tree Amalgamation. J. Algorithms 37(2): 522-537 (2000)
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