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ORCIDMartin Raden
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- affiliation: Albert Ludwigs University of Freiburg, Department of Computer Science, Germany
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2020 – today
- 2021
[j22]Omer S. Alkhnbashi
, Alexander Mitrofanov, Robson Bonidia, Martin Raden, Van Dinh Tran, Florian Eggenhofer, Shiraz A. Shah, Ekrem Öztürk, Victor Alexandre Padilha, Danilo Sipoli Sanches, André C. P. L. F. de Carvalho, Rolf Backofen:
CRISPRloci: comprehensive and accurate annotation of CRISPR-Cas systems. Nucleic Acids Res. 49(Webserver-Issue): 125-130 (2021)- 2020
- [j21]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) - [j20]Gregor Entzian, Martin Raden:
pourRNA - a time- and memory-efficient approach for the guided exploration of RNA energy landscapes. Bioinform. 36(2): 462-469 (2020) - [j19]Martin Raden, Teresa Müller, Stefan Mautner, Rick Gelhausen, Rolf Backofen:
The impact of various seed, accessibility and interaction constraints on sRNA target prediction- a systematic assessment. BMC Bioinform. 21(1): 15 (2020) - [j18]Milad Miladi, Martin Raden, Sven Diederichs, Rolf Backofen:
MutaRNA: analysis and visualization of mutation-induced changes in RNA structure. Nucleic Acids Res. 48(Webserver-Issue): W287-W291 (2020)
2010 – 2019
- 2019
- [j17]Stefan Mautner, Soheila Montaseri, Milad Miladi, Martin Raden, Fabrizio Costa, Rolf Backofen:
ShaKer: RNA SHAPE prediction using graph kernel. Bioinform. 35(14): i354-i359 (2019) - [j16]Milad Miladi, Soheila Montaseri, Rolf Backofen, Martin Raden:
Integration of accessibility data from structure probing into RNA-RNA interaction prediction. Bioinform. 35(16): 2862-2864 (2019) - [j15]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) - [c6]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 - [c5]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
- [j14]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) - [j13]Martin Mann, Hans-Peter Kahle, Matthias Beck, Bela Johannes Bender, Heinrich Spiecker, Rolf Backofen:
MICA: Multiple interval-based curve alignment. SoftwareX 7: 53-58 (2018) - 2017
- [j12]Martin Mann, Patrick R. Wright, Rolf Backofen:
IntaRNA 2.0: enhanced and customizable prediction of RNA-RNA interactions. Nucleic Acids Res. 45(Webserver-Issue): W435-W439 (2017) - 2015
- [j11]Robert Kleinkauf, Martin Mann, Rolf Backofen:
antaRNA: ant colony-based RNA sequence design. Bioinform. 31(19): 3114-3121 (2015) - [j10]Robert Kleinkauf, Torsten Houwaart, Rolf Backofen, Martin Mann:
antaRNA - Multi-objective inverse folding of pseudoknot RNA using ant-colony optimization. BMC Bioinform. 16: 389:1-389:7 (2015) - 2014
- [j9]Martin Mann, Feras Nahar, Norah Schnorr, Rolf Backofen, Peter F. Stadler, Christoph Flamm:
Atom mapping with constraint programming. Algorithms Mol. Biol. 9: 23 (2014) - [j8]Martin Mann, Rolf Backofen:
Exact methods for lattice protein models. Bio Algorithms Med Syst. 10(4): 213-225 (2014) - [j7]Martin Mann, Marcel Kucharík, Christoph Flamm, Michael T. Wolfinger:
Memory-efficient RNA energy landscape exploration. Bioinform. 30(18): 2584-2591 (2014) - [j6]Kousik Kundu, Martin Mann, Fabrizio Costa, Rolf Backofen:
MoDPepInt: an interactive web server for prediction of modular domain-peptide interactions. Bioinform. 30(18): 2668-2669 (2014) - [j5]Patrick R. Wright, Jens Georg, Martin Mann, Dragos Alexandru Sorescu, Andreas S. Richter, Steffen Lott, Robert Kleinkauf, Wolfgang R. Hess, Rolf Backofen:
CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains. Nucleic Acids Res. 42(Webserver-Issue): 119-123 (2014) - 2013
- [c4]Martin Mann, Feras Nahar, Heinz Ekker, Rolf Backofen, Peter F. Stadler, Christoph Flamm:
Atom Mapping with Constraint Programming. CP 2013: 805-822 - [c3]Martin Mann, Heinz Ekker, Christoph Flamm:
The Graph Grammar Library - A Generic Framework for Chemical Graph Rewrite Systems. ICMT 2013: 52-53 - [i6]Martin Mann, Heinz Ekker, Christoph Flamm:
The Graph Grammar Library - a generic framework for chemical graph rewrite systems. CoRR abs/1304.1356 (2013) - 2012
- [j4]Martin Mann, Rhodri Saunders, Cameron Smith, Rolf Backofen, Charlotte M. Deane:
Producing High-Accuracy Lattice Models from Protein Atomic Coordinates Including Side Chains. Adv. Bioinformatics 2012: 148045:1-148045:6 (2012) - [j3]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) - 2010
- [c2]Sergiy Bogomolov, Martin Mann, Björn Voß, Andreas Podelski, Rolf Backofen:
Shape-based Barrier Estimation for RNAs. GCB 2010: 41-50 - [c1]Martin Mann, Alessandro Dal Palù:
Lattice model refinement of protein structures. WCB@ICLP 2010: 67-74 - [i5]Martin Mann, Alessandro Dal Palù:
Lattice model refinement of protein structures. CoRR abs/1005.1853 (2010)
2000 – 2009
- 2009
- [j2]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) - [i4]Martin Mann, Rolf Backofen, Sebastian Will:
Equivalence Classes of Optimal Structures in HP Protein Models Including Side Chains. CoRR abs/0910.3848 (2009) - [i3]Martin Mann, Mohamed Abou Hamra, Kathleen Steinhöfel, Rolf Backofen:
Constraint-based Local Move Definitions for Lattice Protein Models Including Side Chains. CoRR abs/0910.3880 (2009) - 2008
- [j1]Martin Mann, Sebastian Will, Rolf Backofen:
CPSP-tools - Exact and complete algorithms for high-throughput 3D lattice protein studies. BMC Bioinform. 9 (2008) - [i2]Stéphane Zampelli, Martin Mann, Yves Deville, Rolf Backofen:
Decomposition Techniques for Subgraph Matching. CoRR abs/0805.1030 (2008) - 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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