Sebastian Will

Publication Activity (10 Years)

Years Active: 1998-2024
Publications (10 Years): 26

Top Topics

Protein Sequences

Probability Estimation

Secondary Structure

Top Venues

Algorithms Mol. Biol.

Publications

Matthieu Dinot, Benjamin Doerr, Ulysse Hennebelle, Sebastian Will
Hot off the Press: Runtime Analyses of Multi-Objective Evolutionary Algorithms in the Presence of Noise. GECCO Companion (2024)
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) (2024)
Kimon Boehmer, Sarah J. Berkemer, Sebastian Will, Yann Ponty
RNA Triplet Repeats: Improved Algorithms for Structure Prediction and Interactions. WABI (2024)
Mateo Gray, Sebastian Will, Hosna Jabbari
SparseRNAfolD: optimized sparse RNA pseudoknot-free folding with dangle consideration. Algorithms Mol. Biol. 19 (1) (2024)
Matthieu Dinot, Benjamin Doerr, Ulysse Hennebelle, Sebastian Will
Runtime Analyses of Multi-Objective Evolutionary Algorithms in the Presence of Noise. IJCAI (2023)
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) (2023)
Mateo Gray, Sebastian Will, Hosna Jabbari
SparseRNAFolD: Sparse RNA Pseudoknot-Free Folding Including Dangles. WABI (2023)
Matthieu Dinot, Benjamin Doerr, Ulysse Hennebelle, Sebastian Will
Runtime Analyses of Multi-Objective Evolutionary Algorithms in the Presence of Noise. CoRR (2023)
Bertrand Marchand, Sebastian Will, Sarah J. Berkemer, Laurent Bulteau, Yann Ponty
Automated Design of Dynamic Programming Schemes for RNA Folding with Pseudoknots. WABI (2022)
Peter F. Stadler, Sebastian Will
Bi-alignments with affine gaps costs. Algorithms Mol. Biol. 17 (1) (2022)
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) (2020)
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) (2020)
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) (2019)
Stefan Hammer, Wei Wang, Sebastian Will, Yann Ponty
Fixed-parameter tractable sampling for RNA design with multiple target structures. BMC Bioinform. 20 (1) (2019)
Milad Miladi, Martin Raden, Sebastian Will, Rolf Backofen
Fast and Accurate Structure Probability Estimation for Simultaneous Alignment and Folding of RNAs. WABI (2019)
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)
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)
Stefan Hammer, Yann Ponty, Wei Wang, Sebastian Will
Fixed-Parameter Tractable Sampling for RNA Design with Multiple Target Structures. RECOMB (2018)
Hosna Jabbari, Ian Wark, Carlo Montemagno, Sebastian Will
Knotty: efficient and accurate prediction of complex RNA pseudoknot structures. Bioinform. 34 (22) (2018)
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) (2018)
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) (2017)
Michael Walz, Christian Lehsing, Klaus Bengler, Sebastian Will, Magdalena Sich
Impacts of an Intersection Assistance System: Social Interaction between Drivers and Motorcyclists. ICCAE (2017)
Hosna Jabbari, Ian Wark, Carlo Montemagno, Sebastian Will
Sparsification Enables Predicting Kissing Hairpin Pseudoknot Structures of Long RNAs in Practice. WABI (2017)
Sven Findeiß, Maja Etzel, Sebastian Will, Mario Mörl, Peter F. Stadler
Design of Artificial Riboswitches as Biosensors. Sensors 17 (9) (2017)
Felix Kühnl, Peter F. Stadler, Sebastian Will
Tractable RNA-ligand interaction kinetics. BMC Bioinform. 18 (S-12) (2017)
Sebastian Will, Hosna Jabbari
Sparse RNA folding revisited: space-efficient minimum free energy structure prediction. Algorithms Mol. Biol. 11 (2016)
Sebastian Will, Hosna Jabbari
Sparse RNA Folding Revisited: Space-Efficient Minimum Free Energy Prediction. WABI (2015)
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) (2015)
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)
Sebastian Will, Peter F. Stadler
A Common Framework for Linear and Cyclic Multiple Sequence Alignment Problems. WABI (2014)
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)
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) (2014)
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 (2014)
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) (2014)
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)
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)
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 (2013)
Christina Schmiedl, Mathias Möhl, Steffen Heyne, Mika Amit, Gad M. Landau, Sebastian Will, Rolf Backofen
Exact Pattern Matching for RNA Structure Ensembles. RECOMB (2012)
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)
Dragos Alexandru Sorescu, Mathias Möhl, Martin Mann, Rolf Backofen, Sebastian Will
CARNA - alignment of RNA structure ensembles. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Sebastian Will, Michael Yu, Bonnie Berger
Structure-Based Whole Genome Realignment Reveals Many Novel Non-coding RNAs. RECOMB (2012)
Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebastian Will, Michael Beckstette
Structator: fast index-based search for RNA sequence-structure patterns. BMC Bioinform. 12 (2011)
Mathias Möhl, Sebastian Will, Rolf Backofen
Lifting Prediction to Alignment of RNA Pseudoknots. J. Comput. Biol. 17 (3) (2010)
Mathias Möhl, Raheleh Salari, Sebastian Will, Rolf Backofen, Süleyman Cenk Sahinalp
Sparsification of RNA structure prediction including pseudoknots. Algorithms Mol. Biol. 5 (2010)
Alessandro Dal Palù, Mathias Möhl, Sebastian Will
A Propagator for Maximum Weight String Alignment with Arbitrary Pairwise Dependencies. CP (2010)
Mathias Möhl, Raheleh Salari, Sebastian Will, Rolf Backofen, Süleyman Cenk Sahinalp
Sparsification of RNA Structure Prediction Including Pseudoknots. WABI (2010)
Raheleh Salari, Mathias Möhl, Sebastian Will, Süleyman Cenk Sahinalp, Rolf Backofen
Time and Space Efficient RNA-RNA Interaction Prediction via Sparse Folding. RECOMB (2010)
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) (2010)
Alessandro Dal Palù, Mathias Möhl, Sebastian Will
Alignnment of RNA with Structures of Unlimited Complexity. WCB@ICLP (2010)
Mathias Möhl, Sebastian Will, Rolf Backofen
Lifting Prediction to Alignment of RNA Pseudoknots. RECOMB (2009)
Steffen Heyne, Sebastian Will, Michael Beckstette, Rolf Backofen
Lightweight comparison of RNAs based on exact sequence-structure matches. Bioinform. 25 (16) (2009)
Jérôme Waldispühl, Charles W. O'Donnell, Sebastian Will, Srinivas Devadas, Rolf Backofen, Bonnie Berger
Simultaneous Alignment and Folding of Protein Sequences. RECOMB (2009)
Martin Mann, Rolf Backofen, Sebastian Will
Equivalence Classes of Optimal Structures in HP Protein Models Including Side Chains CoRR (2009)
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) (2009)
Wolfgang Otto, Sebastian Will, Rolf Backofen
Structural Local Multiple Alignment of RNA. German Conference on Bioinformatics (2008)
Sebastian Will, Anke Busch, Rolf Backofen
Efficient Sequence Alignment with Side-Constraints by Cluster Tree Elimination. Constraints An Int. J. 13 (1-2) (2008)
Alessandro Dal Palù, Agostino Dovier, Sebastian Will
Introduction to the Special Issue on Bioinformatics and Constraints. Constraints An Int. J. 13 (1-2) (2008)
Mathias Möhl, Sebastian Will, Rolf Backofen
Fixed Parameter Tractable Alignment of RNA Structures Including Arbitrary Pseudoknots. CPM (2008)
Steffen Heyne, Sebastian Will, Michael Beckstette, Rolf Backofen
Lightweight Comparison of RNAs based on Exact Sequence-structure Matches. German Conference on Bioinformatics (2008)
Martin Mann, Sebastian Will, Rolf Backofen
CPSP-tools - Exact and complete algorithms for high-throughput 3D lattice protein studies. BMC Bioinform. 9 (2008)
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)
Martin Mann, Guido Tack, Sebastian Will
Decomposition During Search for Propagation-Based Constraint Solvers CoRR (2007)
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)
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) (2006)
Anke Busch, Sebastian Will, Rolf Backofen
SECISDesign: a server to design SECIS-elements within the coding sequence. Bioinform. 21 (15) (2005)
Rolf Backofen, Sebastian Will
Local Sequence-structure Motifs in Rna. J. Bioinform. Comput. Biol. 2 (4) (2004)
Rolf Backofen, Sebastian Will
A Constraint-Based Approach to Structure Prediction for Simplified Protein Models That Outperforms Other Existing Methods. ICLP (2003)
Sebastian Will
Constraint-Based Hydrophobic Core Construction for Protein Structure Prediction in the Face-Centered-Cubic Lattice. Pacific Symposium on Biocomputing (2002)
Rolf Backofen, Sebastian Will
Excluding Symmetries in Constraint-Based Search. Constraints An Int. J. 7 (3-4) (2002)
Rolf Backofen, Sebastian Will
Optimally Compact Finite Sphere Packings - Hydrophobic Cores in the FCC. CPM (2001)
Rolf Backofen, Sebastian Will
Fast, Constraint-Based Threading of HP-Sequences to Hydrophobic Cores. CP (2001)
Slim Abdennadher, Matthias Saft, Sebastian Will
Classroom Assignment Using Constraint Logic Programming. PACPL (2000)
Slim Abdennadher, Matthias Saft, Sebastian Will
Constraintbasierte Raumplanung für Universitäten. WLP (2000)
Rolf Backofen, Sebastian Will, Peter Clote
Algorithmic approach to quantifying the hydrophobic force contribution in protein folding. German Conference on Bioinformatics (1999)
Rolf Backofen, Sebastian Will, Erich Bornberg-Bauer
Application of constraint programming techniques for structure prediction of lattice proteins with extended alphabets. Bioinform. 15 (3) (1999)
Rolf Backofen, Sebastian Will
Excluding Symmetries in Constraint-Based Search. CP (1999)
Rolf Backofen, Sebastian Will
Structure prediction in an HP-type lattice with an extended alphabet. German Conference on Bioinformatics (1998)