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Sebastian Will
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Publications
- 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
- [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) - [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 - [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
- [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
- [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) - 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) - [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 - 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) - [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 - 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) - [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
- [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) - [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 - [i2]Martin Mann, Rolf Backofen, Sebastian Will:
Equivalence Classes of Optimal Structures in HP Protein Models Including Side Chains. CoRR abs/0910.3848 (2009) - 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) - [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) - [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 - 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) - 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
- [j2]Rolf Backofen, Sebastian Will:
Excluding Symmetries in Constraint-Based Search. Constraints An Int. J. 7(3-4): 333-349 (2002) - 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 - 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) - [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
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