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ORCIDSebastian Will
Person information
- affiliation: University Vienna, Department Theoretical Chemistry, Austria
- affiliation: University of Leipzig, Department of Computer Science, Germany
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Journal Articles
- 2024
[j36]Mateo Gray, Sebastian Will, Hosna Jabbari:
SparseRNAfolD: optimized sparse RNA pseudoknot-free folding with dangle consideration. Algorithms Mol. Biol. 19(1): 9 (2024)- [j35]Hua-Ting Yao, Bertrand Marchand, Sarah J. Berkemer, Yann Ponty, Sebastian Will:
Infrared: a declarative tree decomposition-powered framework for bioinformatics. Algorithms Mol. Biol. 19(1): 13 (2024) - 2023
- [j34]Bertrand Marchand, Sebastian Will, Sarah J. Berkemer, Yann Ponty, Laurent Bulteau:
Automated design of dynamic programming schemes for RNA folding with pseudoknots. Algorithms Mol. Biol. 18(1): 18 (2023) - 2022
- [j33]Peter F. Stadler
, Sebastian Will:
Bi-alignments with affine gaps costs. Algorithms Mol. Biol. 17(1): 10 (2022) - 2020
- [j32]Milad Miladi, Martin Raden, Sebastian Will, Rolf Backofen:
Fast and accurate structure probability estimation for simultaneous alignment and folding of RNAs with Markov chains. Algorithms Mol. Biol. 15(1): 19 (2020) - [j31]Teresa Müller, Milad Miladi, Frank Hutter, Ivo L. Hofacker, Sebastian Will, Rolf Backofen:
The locality dilemma of Sankoff-like RNA alignments. Bioinform. 36(Supplement-1): i242-i250 (2020) - 2019
- [j30]Stefan Hammer, Wei Wang, Sebastian Will, Yann Ponty:
Fixed-parameter tractable sampling for RNA design with multiple target structures. BMC Bioinform. 20(1): 209:1-209:13 (2019) - [j29]Rick Gelhausen, Sebastian Will, Ivo L. Hofacker, Rolf Backofen, Martin Raden:
IntaRNAhelix-composing RNA-RNA interactions from stable inter-molecular helices boosts bacterial sRNA target prediction. J. Bioinform. Comput. Biol. 17(5): 1940009:1-1940009:16 (2019) - 2018
- [j28]Hosna Jabbari, Ian Wark, Carlo Montemagno, Sebastian Will:
Knotty: efficient and accurate prediction of complex RNA pseudoknot structures. Bioinform. 34(22): 3849-3856 (2018) - [j27]Martin Raden, Syed M. Ali, Omer S. Alkhnbashi, Anke Busch, Fabrizio Costa, Jason A. Davis, Florian Eggenhofer, Rick Gelhausen, Jens Georg, Steffen Heyne, Michael Hiller, Kousik Kundu, Robert Kleinkauf, Steffen Lott, Mostafa M. Mohamed, Alexander Mattheis, Milad Miladi, Andreas S. Richter, Sebastian Will, Joachim Wolff, Patrick R. Wright, Rolf Backofen:
Freiburg RNA tools: a central online resource for RNA-focused research and teaching. Nucleic Acids Res. 46(Webserver-Issue): W25-W29 (2018) - 2017
- [j26]Felix Kühnl, Peter F. Stadler, Sebastian Will:
Tractable RNA-ligand interaction kinetics. BMC Bioinform. 18(S-12): 47-55 (2017) - [j25]Björn A. Grüning, Jörg Fallmann, Dilmurat Yusuf, Sebastian Will, Anika Erxleben, Florian Eggenhofer, Torsten Houwaart, Bérénice Batut, Pavankumar Videm, Andrea Bagnacani, Markus Wolfien, Steffen Lott, Youri Hoogstrate, Wolfgang R. Hess, Olaf Wolkenhauer, Steve Hoffmann, Altuna Akalin, Uwe Ohler, Peter F. Stadler, Rolf Backofen:
The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy. Nucleic Acids Res. 45(Webserver-Issue): W560-W566 (2017) - [j24]Sven Findeiß, Maja Etzel, Sebastian Will, Mario Mörl, Peter F. Stadler:
Design of Artificial Riboswitches as Biosensors. Sensors 17(9): 1990 (2017) - 2016
- [j23]Sebastian Will, Hosna Jabbari:
Sparse RNA folding revisited: space-efficient minimum free energy structure prediction. Algorithms Mol. Biol. 11: 7 (2016) - 2015
- [j22]Sebastian Will, Christina Otto, Milad Miladi, Mathias Möhl, Rolf Backofen:
SPARSE: quadratic time simultaneous alignment and folding of RNAs without sequence-based heuristics. Bioinform. 31(15): 2489-2496 (2015) - 2014
- [j21]Christina Otto, Mathias Möhl, Steffen Heyne, Mika Amit, Gad M. Landau, Rolf Backofen, Sebastian Will:
ExpaRNA-P: simultaneous exact pattern matching and folding of RNAs. BMC Bioinform. 15: 6602 (2014) - [j20]Jérôme Waldispühl, Charles W. O'Donnell, Sebastian Will, Srinivas Devadas, Rolf Backofen, Bonnie Berger:
Simultaneous Alignment and Folding of Protein Sequences. J. Comput. Biol. 21(7): 477-491 (2014) - [j19]Mika Amit, Rolf Backofen, Steffen Heyne, Gad M. Landau, Mathias Möhl, Christina Otto, Sebastian Will:
Local Exact Pattern Matching for Non-FixedRNA Structures. IEEE ACM Trans. Comput. Biol. Bioinform. 11(1): 219-230 (2014) - 2013
- [j18]Sebastian Will, Michael F. Siebauer, Steffen Heyne, Jan Engelhardt, Peter F. Stadler, Kristin Reiche, Rolf Backofen:
LocARNAscan: Incorporating thermodynamic stability in sequence and structure-based RNA homology search. Algorithms Mol. Biol. 8: 14 (2013) - 2012
- [j17]Dragos Alexandru Sorescu, Mathias Möhl, Martin Mann, Rolf Backofen, Sebastian Will:
CARNA - alignment of RNA structure ensembles. Nucleic Acids Res. 40(Web-Server-Issue): 49-53 (2012) - 2011
- [j16]Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebastian Will, Michael Beckstette:
Structator: fast index-based search for RNA sequence-structure patterns. BMC Bioinform. 12: 214 (2011) - 2010
- [j15]Mathias Möhl, Raheleh Salari, Sebastian Will, Rolf Backofen, Süleyman Cenk Sahinalp:
Sparsification of RNA structure prediction including pseudoknots. Algorithms Mol. Biol. 5: 39 (2010) - [j14]Mathias Möhl, Sebastian Will, Rolf Backofen:
Lifting Prediction to Alignment of RNA Pseudoknots. J. Comput. Biol. 17(3): 429-442 (2010) - [j13]Cameron Smith, Steffen Heyne, Andreas S. Richter, Sebastian Will, Rolf Backofen:
Freiburg RNA Tools: a web server integrating IntaRNA, ExpaRNA and LocARNA. Nucleic Acids Res. 38(Web-Server-Issue): 373-377 (2010) - 2009
- [j12]Martin Mann, Cameron Smith, Mohamad Rabbath, Marlien Edwards, Sebastian Will, Rolf Backofen:
CPSP-web-tools: a server for 3D lattice protein studies. Bioinform. 25(5): 676-677 (2009) - [j11]Steffen Heyne, Sebastian Will, Michael Beckstette, Rolf Backofen:
Lightweight comparison of RNAs based on exact sequence-structure matches. Bioinform. 25(16): 2095-2102 (2009) - 2008
- [j10]Stephan H. Bernhart, Ivo L. Hofacker, Sebastian Will, Andreas R. Gruber, Peter F. Stadler:
RNAalifold: improved consensus structure prediction for RNA alignments. BMC Bioinform. 9 (2008) - [j9]Martin Mann, Sebastian Will, Rolf Backofen:
CPSP-tools - Exact and complete algorithms for high-throughput 3D lattice protein studies. BMC Bioinform. 9 (2008) - [j8]Alessandro Dal Palù, Agostino Dovier, Sebastian Will:
Introduction to the Special Issue on Bioinformatics and Constraints. Constraints An Int. J. 13(1-2): 1-2 (2008) - [j7]Sebastian Will, Anke Busch, Rolf Backofen:
Efficient Sequence Alignment with Side-Constraints by Cluster Tree Elimination. Constraints An Int. J. 13(1-2): 110-129 (2008) - 2007
- [j6]Sebastian Will, Kristin Reiche, Ivo L. Hofacker, Peter F. Stadler, Rolf Backofen:
Inferring Noncoding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering. PLoS Comput. Biol. 3(4) (2007) - 2006
- [j5]Rolf Backofen, Sebastian Will:
A Constraint-Based Approach to Fast and Exact Structure Prediction in Three-Dimensional Protein Models. Constraints An Int. J. 11(1): 5-30 (2006) - 2005
- [j4]Anke Busch, Sebastian Will, Rolf Backofen:
SECISDesign: a server to design SECIS-elements within the coding sequence. Bioinform. 21(15): 3312-3313 (2005) - 2004
- [j3]Rolf Backofen, Sebastian Will:
Local Sequence-structure Motifs in Rna. J. Bioinform. Comput. Biol. 2(4): 681-698 (2004) - 2002
- [j2]Rolf Backofen, Sebastian Will:
Excluding Symmetries in Constraint-Based Search. Constraints An Int. J. 7(3-4): 333-349 (2002) - 1999
- [j1]Rolf Backofen, Sebastian Will, Erich Bornberg-Bauer:
Application of constraint programming techniques for structure prediction of lattice proteins with extended alphabets. Bioinform. 15(3): 234-242 (1999)
Conference and Workshop Papers
- 2023
- [c36]Matthieu Dinot, Benjamin Doerr, Ulysse Hennebelle, Sebastian Will:
Runtime Analyses of Multi-Objective Evolutionary Algorithms in the Presence of Noise. IJCAI 2023: 5549-5557 - [c35]Mateo Gray, Sebastian Will, Hosna Jabbari:
SparseRNAFolD: Sparse RNA Pseudoknot-Free Folding Including Dangles. WABI 2023: 19:1-19:18 - 2022
- [c34]Bertrand Marchand, Sebastian Will, Sarah J. Berkemer, Laurent Bulteau, Yann Ponty:
Automated Design of Dynamic Programming Schemes for RNA Folding with Pseudoknots. WABI 2022: 7:1-7:24 - 2019
- [c33]Rick Gelhausen, Sebastian Will, Ivo L. Hofacker, Rolf Backofen, Martin Raden:
Constraint Maximal Inter-molecular Helix Lengths within RNA-RNA Interaction Prediction Improves Bacterial sRNA Target Prediction. BIOINFORMATICS 2019: 131-140 - [c32]Maria Waldl, Sebastian Will, Michael T. Wolfinger, Ivo L. Hofacker, Peter F. Stadler:
Bi-alignments as Models of Incongruent Evolution of RNA Sequence and Secondary Structure. CIBB 2019: 159-170 - [c31]Milad Miladi, Martin Raden, Sebastian Will, Rolf Backofen:
Fast and Accurate Structure Probability Estimation for Simultaneous Alignment and Folding of RNAs. WABI 2019: 14:1-14:13 - 2018
- [c30]Stefan Hammer, Yann Ponty, Wei Wang, Sebastian Will:
Fixed-Parameter Tractable Sampling for RNA Design with Multiple Target Structures. RECOMB 2018: 256-258 - 2017
- [c29]Michael Walz, Christian Lehsing, Klaus Bengler, Sebastian Will, Magdalena Sich:
Impacts of an Intersection Assistance System: Social Interaction between Drivers and Motorcyclists. ICCAE 2017: 279-286 - [c28]Hosna Jabbari, Ian Wark, Carlo Montemagno, Sebastian Will:
Sparsification Enables Predicting Kissing Hairpin Pseudoknot Structures of Long RNAs in Practice. WABI 2017: 12:1-12:13 - 2015
- [c27]Sebastian Will, Hosna Jabbari:
Sparse RNA Folding Revisited: Space-Efficient Minimum Free Energy Prediction. WABI 2015: 257-270 - 2014
- [c26]Christian Höner zu Siederdissen, Sarah Berkemer, Fabian Amman, Axel Wintsche, Sebastian Will, Sonja J. Prohaska, Peter F. Stadler:
Comparative Detection of Processed Small RNAs in Archaea. IWBBIO 2014: 286-297 - [c25]Sebastian Will, Peter F. Stadler:
A Common Framework for Linear and Cyclic Multiple Sequence Alignment Problems. WABI 2014: 135-147 - [c24]Hugo W. Schneider, Sebastian Bartschat, Gero Doose, Lucas Maciel, Erick Pizani, Marcelo Bassani, Fernando Araripe Torres, Sebastian Will, Tainá Raiol, Marcelo M. Brigido, Maria Emília Telles Walter, Peter F. Stadler:
Genome-Wide Identification of Non-coding RNAs in Komagatella pastoris str. GS115. BSB 2014: 115-122 - 2013
- [c23]Sebastian Will, Christina Schmiedl, Milad Miladi, Mathias Möhl, Rolf Backofen:
SPARSE: Quadratic Time Simultaneous Alignment and Folding of RNAs without Sequence-Based Heuristics. RECOMB 2013: 289-290 - [c22]Fabian Amman, Stephan H. Bernhart, Gero Doose, Ivo L. Hofacker, Jing Qin, Peter F. Stadler, Sebastian Will:
The Trouble with Long-Range Base Pairs in RNA Folding. BSB 2013: 1-11 - 2012
- [c21]Mika Amit, Rolf Backofen, Steffen Heyne, Gad M. Landau, Mathias Möhl, Christina Schmiedl, Sebastian Will:
Local Exact Pattern Matching for Non-fixed RNA Structures. CPM 2012: 306-320 - [c20]Christina Schmiedl, Mathias Möhl, Steffen Heyne, Mika Amit, Gad M. Landau, Sebastian Will, Rolf Backofen:
Exact Pattern Matching for RNA Structure Ensembles. RECOMB 2012: 245-260 - [c19]Sebastian Will, Michael Yu, Bonnie Berger:
Structure-Based Whole Genome Realignment Reveals Many Novel Non-coding RNAs. RECOMB 2012: 341 - 2010
- [c18]Alessandro Dal Palù, Mathias Möhl, Sebastian Will:
A Propagator for Maximum Weight String Alignment with Arbitrary Pairwise Dependencies. CP 2010: 167-175 - [c17]Alessandro Dal Palù, Mathias Möhl, Sebastian Will:
Alignnment of RNA with Structures of Unlimited Complexity. WCB@ICLP 2010: 53-58 - [c16]Raheleh Salari, Mathias Möhl, Sebastian Will, Süleyman Cenk Sahinalp, Rolf Backofen:
Time and Space Efficient RNA-RNA Interaction Prediction via Sparse Folding. RECOMB 2010: 473-490 - [c15]Mathias Möhl, Raheleh Salari, Sebastian Will, Rolf Backofen, Süleyman Cenk Sahinalp:
Sparsification of RNA Structure Prediction Including Pseudoknots. WABI 2010: 40-51 - 2009
- [c14]Mathias Möhl, Sebastian Will, Rolf Backofen:
Lifting Prediction to Alignment of RNA Pseudoknots. RECOMB 2009: 285-301 - [c13]Jérôme Waldispühl, Charles W. O'Donnell, Sebastian Will, Srinivas Devadas, Rolf Backofen, Bonnie Berger:
Simultaneous Alignment and Folding of Protein Sequences. RECOMB 2009: 339-355 - 2008
- [c12]Mathias Möhl, Sebastian Will, Rolf Backofen:
Fixed Parameter Tractable Alignment of RNA Structures Including Arbitrary Pseudoknots. CPM 2008: 69-81 - [c11]Wolfgang Otto, Sebastian Will, Rolf Backofen:
Structural Local Multiple Alignment of RNA. German Conference on Bioinformatics 2008: 178-188 - [c10]Steffen Heyne, Sebastian Will, Michael Beckstette, Rolf Backofen:
Lightweight Comparison of RNAs based on Exact Sequence-structure Matches. German Conference on Bioinformatics 2008: 189-199 - 2003
- [c9]Rolf Backofen, Sebastian Will:
A Constraint-Based Approach to Structure Prediction for Simplified Protein Models That Outperforms Other Existing Methods. ICLP 2003: 49-71 - 2002
- [c8]Sebastian Will:
Constraint-Based Hydrophobic Core Construction for Protein Structure Prediction in the Face-Centered-Cubic Lattice. Pacific Symposium on Biocomputing 2002: 661-672 - 2001
- [c7]Rolf Backofen, Sebastian Will:
Fast, Constraint-Based Threading of HP-Sequences to Hydrophobic Cores. CP 2001: 494-508 - [c6]Rolf Backofen, Sebastian Will:
Optimally Compact Finite Sphere Packings - Hydrophobic Cores in the FCC. CPM 2001: 257-272 - 2000
- [c5]Slim Abdennadher, Matthias Saft, Sebastian Will:
Classroom Assignment Using Constraint Logic Programming. PACPL 2000: 179-192 - [c4]Slim Abdennadher, Matthias Saft, Sebastian Will:
Constraintbasierte Raumplanung für Universitäten. WLP 2000: 229-230 - 1999
- [c3]Rolf Backofen, Sebastian Will:
Excluding Symmetries in Constraint-Based Search. CP 1999: 73-87 - [c2]Rolf Backofen, Sebastian Will, Peter Clote:
Algorithmic approach to quantifying the hydrophobic force contribution in protein folding. German Conference on Bioinformatics 1999: 93-106 - 1998
- [c1]Rolf Backofen, Sebastian Will:
Structure prediction in an HP-type lattice with an extended alphabet. German Conference on Bioinformatics 1998
Editorship
- 2012
- [e1]Agostino Dovier, Alessandro Dal Palù, Sebastian Will:
Workshop on Constraint Based Methods for Bioinformatics, WCB10, Edinburgh, UK, July 21, 2010. EPiC Series in Computing 4, EasyChair 2012 [contents]
Informal and Other Publications
- 2023
- [i3]Matthieu Dinot, Benjamin Doerr, Ulysse Hennebelle, Sebastian Will:
Runtime Analyses of Multi-Objective Evolutionary Algorithms in the Presence of Noise. CoRR abs/2305.10259 (2023) - 2009
- [i2]Martin Mann, Rolf Backofen, Sebastian Will:
Equivalence Classes of Optimal Structures in HP Protein Models Including Side Chains. CoRR abs/0910.3848 (2009) - 2007
- [i1]Martin Mann, Guido Tack, Sebastian Will:
Decomposition During Search for Propagation-Based Constraint Solvers. CoRR abs/0712.2389 (2007)
Coauthor Index
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last updated on 2024-04-03 20:28 CEST by the dblp team
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