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Sebastian Böcker
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- affiliation: Friedrich-Schiller-Universität, Jena, Germany
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2020 – today
- 2024
- [i19]Roman Bushuiev, Anton Bushuiev, Niek F. de Jonge, Adamo Young, Fleming Kretschmer, Raman Samusevich, Janne Heirman, Fei Wang, Luke Zhang, Kai Dührkop, Marcus Ludwig, Nils A. Haupt, Apurva Kalia, Corinna Brungs, Robin Schmid, Russell Greiner, Bo Wang, David S. Wishart, Li-Ping Liu, Juho Rousu, Wout Bittremieux, Hannes Rost, Tytus D. Mak, Soha Hassoun, Florian Huber, Justin J. J. van der Hooft, Michael A. Stravs, Sebastian Böcker, Josef Sivic, Tomás Pluskal:
MassSpecGym: A benchmark for the discovery and identification of molecules. CoRR abs/2410.23326 (2024) - 2021
- [i18]Sebastian Böcker, Rebekah L. Gundry, Lennart Martens, Magnus Palmblad
:
Computational Proteomics (Dagstuhl Seminar 21271). Dagstuhl Reports 11(6): 1-13 (2021) - 2020
- [j43]Marcus Ludwig
Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. Nat. Mach. Intell. 2(10): 629-641 (2020) - [j42]Marcus Ludwig
Publisher Correction: Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. Nat. Mach. Intell. 2(11): 727 (2020) - [i17]Sebastian Böcker, Corey Broeckling, Emma Schymanski
Computational Metabolomics: From Cheminformatics to Machine Learning (Dagstuhl Seminar 20051). Dagstuhl Reports 10(1): 144-159 (2020)
2010 – 2019
- 2018
- [j41]Marcus Ludwig, Kai Dührkop
Bayesian networks for mass spectrometric metabolite identification via molecular fingerprints. Bioinform. 34(13): i333-i340 (2018) - [j40]Eric Bach
Liquid-chromatography retention order prediction for metabolite identification. Bioinform. 34(17): i875-i883 (2018) - [c40]Kai Dührkop
Heuristic Algorithms for the Maximum Colorful Subtree Problem. WABI 2018: 23:1-23:14 - [i16]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
- [j39]Emma Schymanski
Critical Assessment of Small Molecule Identification 2016: automated methods. J. Cheminformatics 9(1): 22:1-22:21 (2017) - [j38]Eudes Barbosa, Richard Röttger
LifeStyle-Specific-Islands (LiSSI): Integrated Bioinformatics Platform for Genomic Island Analysis. J. Integr. Bioinform. 14(2) (2017) - [c39]Céline Brouard, Eric Bach, Sebastian Böcker
Magnitude-Preserving Ranking for Structured Outputs. ACML 2017: 407-422 - [i15]W. Timothy J. White, Marcus Ludwig, Sebastian Böcker:
Cograph Editing in O(3nn) time and O(2n) space. CoRR abs/1711.05839 (2017) - [i14]Theodore Alexandrov, Sebastian Böcker
Computational Metabolomics: Identification, Interpretation, Imaging (Dagstuhl Seminar 17491). Dagstuhl Reports 7(12): 1-17 (2017) - [i13]Masanori Arita, Sebastian Böcker, Steffen Neumann:
Computational Metabolomics (NII Shonan Meeting 2017-3). NII Shonan Meet. Rep. 2017 (2017) - 2016
- [j37]Céline Brouard
Fast metabolite identification with Input Output Kernel Regression. Bioinform. 32(12): 28-36 (2016) - [j36]Sebastian Böcker
Fragmentation trees reloaded. J. Cheminformatics 8(1): 5:1-5:26 (2016) - 2015
- [j35]Sebastian Böcker
Ten Times Eighteen. J. Inf. Process. 23(3): 258-264 (2015) - [c38]W. Timothy J. White, Stephan Beyer
Speedy Colorful Subtrees. COCOON 2015: 310-322 - [c37]Kai Dührkop
Fragmentation Trees Reloaded. RECOMB 2015: 65-79 - [i12]Sebastian Böcker
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 Prepr. 3: e1297 (2015) - 2014
- [j34]Huibin Shen, Kai Dührkop
Metabolite identification through multiple kernel learning on fragmentation trees. Bioinform. 30(12): 157-164 (2014) - [c36]Clemens Beckstein, Sebastian Böcker, Martin Bogdan, Helge Bruelheide, H. Martin Bücker, Joachim Denzler, Peter Dittrich, Ivo Grosse, Alexander Hinneburg, Birgitta König-Ries, Felicitas Löffler, Manja Marz, Matthias Müller-Hannemann, Martin Winter
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]Kai Dührkop, Sebastian Böcker:
Fragmentation trees reloaded. CoRR abs/1412.1929 (2014) - [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
Statistics for approximate gene clusters. BMC Bioinform. 14(S-15): S14 (2013) - [j31]Imran Rauf, Florian Rasche, François Nicolas, Sebastian Böcker
Finding Maximum Colorful Subtrees in Practice. J. Comput. Biol. 20(4): 311-321 (2013) - [j30]Kerstin Scheubert, Franziska Hufsky
Computational mass spectrometry for small molecules. J. Cheminformatics 5: 12 (2013) - [c34]Sebastian Böcker
Cluster Editing. CiE 2013: 33-44 - [c33]Kai Dührkop
Faster Mass Decomposition. WABI 2013: 45-58 - [c32]Sebastian Böcker
The Generalized Robinson-Foulds Metric. WABI 2013: 156-169 - [i8]Sebastian Böcker
The generalized Robinson-Foulds metric. CoRR abs/1307.7824 (2013) - 2012
- [j29]Franziska Hufsky
Fast alignment of fragmentation trees. Bioinform. 28(12): 265-273 (2012) - [j28]Sebastian Böcker
A note on the parameterized complexity of unordered maximum tree orientation. Discret. Appl. Math. 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
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
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 für Informatik 2012, ISBN 978-3-939897-44-6 [contents] - [i7]Sebastian Böcker:
Ten times eighteen. CoRR abs/1209.1977 (2012) - 2011
- [j25]Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker
Polynomial Supertree Methods Revisited. Adv. Bioinformatics 2011: 524182:1-524182:21 (2011) - [j24]Sebastian Böcker
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
Automated bond order assignment as an optimization problem. Bioinform. 27(5): 619-625 (2011) - [j22]Franziska Hufsky
Swiftly Computing Center Strings. BMC Bioinform. 12: 106 (2011) - [j21]Tobias Wittkop, Sven Rahmann, Richard Röttger, Sebastian Böcker
Extension and Robustness of Transitivity Clustering for Protein-Protein Interaction Network Analysis. Internet Math. 7(4): 255-273 (2011) - [j20]Sebastian Böcker
Even faster parameterized cluster deletion and cluster editing. Inf. Process. Lett. 111(14): 717-721 (2011) - [j19]Kerstin Scheubert, Franziska Hufsky
Computing Fragmentation Trees from Metabolite Multiple Mass Spectrometry Data. J. Comput. Biol. 18(11): 1383-1397 (2011) - [j18]Sebastian Böcker
Determination of Glycan Structure from Tandem Mass Spectra. IEEE ACM Trans. Comput. Biol. Bioinform. 8(4): 976-986 (2011) - [j17]Sebastian Böcker
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]Sebastian Böcker
A Golden Ratio Parameterized Algorithm for Cluster Editing. IWOCA 2011: 85-95 - [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
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
Swiftly Computing Center Strings. WABI 2010: 325-336
2000 – 2009
- 2009
- [j16]Sebastian Böcker
SIRIUS: decomposing isotope patterns for metabolite identification. Bioinform. 25(2): 218-224 (2009) - [j15]Sebastian Böcker
On optimal comparability editing with applications to molecular diagnostics. BMC Bioinform. 10(S-1) (2009) - [j14]Sebastian Böcker
Computation of Median Gene Clusters. J. Comput. Biol. 16(8): 1085-1099 (2009) - [j13]Sebastian Böcker
Going weighted: Parameterized algorithms for cluster editing. Theor. Comput. Sci. 410(52): 5467-5480 (2009) - [c21]Sebastian Böcker
Determination of Glycan Structure from Tandem Mass Spectra. COCOON 2009: 258-267 - [c20]Sebastian Böcker
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
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
DECOMP - from interpreting Mass Spectrometry peaks to solving the Money Changing Problem. Bioinform. 24(4): 591-593 (2008) - [j11]Thasso Griebel, Malte Brinkmeyer, Sebastian Böcker
EPoS: a modular software framework for phylogenetic analysis. Bioinform. 24(20): 2399-2400 (2008) - [j10]Wiebke Timm, Alexandra Scherbart, Sebastian Böcker
Peak intensity prediction in MALDI-TOF mass spectrometry: A machine learning study to support quantitative proteomics. BMC Bioinform. 9 (2008) - [j9]Sebastian Böcker
Combinatorial Approaches for Mass Spectra Recalibration. IEEE ACM Trans. Comput. Biol. 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
Going Weighted: Parameterized Algorithms for Cluster Editing. COCOA 2008: 1-12 - [c14]Sebastian Böcker
Towards de novo identification of metabolites by analyzing tandem mass spectra. ECCB 2008: 49-55 - [c13]Alexandra Scherbart, Wiebke Timm, Sebastian Böcker
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
Computation of Median Gene Clusters. RECOMB 2008: 331-345 - [c10]Sebastian Böcker
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
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. Bioinform. 23(2): 5-12 (2007) - [j6]Hans-Michael Kaltenbach
SAMPI: Protein Identification with Mass Spectra Alignments. BMC Bioinform. 8 (2007) - [j5]Sebastian Böcker
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]Sebastian Böcker
Sequencing from Compomers: The Puzzle. Theory Comput. Syst. 39(3): 455-471 (2006) - [c8]Hans-Michael Kaltenbach
Markov Additive Chains and Applications to Fragment Statistics for Peptide Mass Fingerprinting. Systems Biology and Computational Proteomics 2006: 29-41 - [c7]Sebastian Böcker
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]Sebastian Böcker, Zsuzsanna Lipták
Efficient mass decomposition. SAC 2005: 151-157 - [i2]Sebastian Böcker, Veli Mäkinen:
Combinatorial Approaches for Mass Spectra Recalibration. Computational Proteomics 2005 - [i1]Sebastian Böcker
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. J. Comput. Biol. 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: 13-23 - 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]Sebastian Böcker
Exponentially many supertrees. Appl. Math. Lett. 15(7): 861-865 (2002) - 2000
- [j1]Sebastian Böcker
Algorithmic Aspects of Tree Amalgamation. J. Algorithms 37(2): 522-537 (2000)
Coauthor Index
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last updated on 2024-12-01 01:12 CET by the dblp team
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