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ORCIDSven Rahmann
Person information
- affiliation: Saarland University, Germany
- affiliation (former): Technical University of Dortmund, Germany
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2020 – today
- 2024
[j39]Luca Renders
, Lore Depuydt, Sven Rahmann, Jan Fostier:
Lossless Approximate Pattern Matching: Automated Design of Efficient Search Schemes. J. Comput. Biol. 31(10): 975-989 (2024)- [c44]Luca Renders, Lore Depuydt, Sven Rahmann, Jan Fostier:
Automated Design of Efficient Search Schemes for Lossless Approximate Pattern Matching. RECOMB 2024: 164-184 - [c43]Jens Zentgraf, Sven Rahmann:
Swiftly Identifying Strongly Unique k-Mers. WABI 2024: 15:1-15:15 - 2022
- [c42]Jens Zentgraf, Sven Rahmann:
Fast Gapped k-mer Counting with Subdivided Multi-Way Bucketed Cuckoo Hash Tables. WABI 2022: 12:1-12:20 - [p3]Sven Rahmann, Alexander Schramm, Johannes Köster:
Cancer Diagnostics and Therapy from Molecular Data. Mach. Learn. under Resour. Constraints Vol. 3 (3) 2022: 43-57 - [p2]Bianca K. Stöcker, Till Schäfer, Petra Mutzel, Johannes Köster, Nils M. Kriege, Sven Rahmann:
Protein Complex Similarity. Mach. Learn. under Resour. Constraints Vol. 3 (3) 2022: 85-102 - [e1]Christina Boucher, Sven Rahmann:
22nd International Workshop on Algorithms in Bioinformatics, WABI 2022, September 5-7, 2022, Potsdam, Germany. LIPIcs 242, Schloss Dagstuhl - Leibniz-Zentrum für Informatik 2022, ISBN 978-3-95977-243-3 [contents] - 2021
- [j38]Jens Zentgraf, Sven Rahmann:
Fast lightweight accurate xenograft sorting. Algorithms Mol. Biol. 16(1): 2 (2021) - [j37]Tizian Schulz, Roland Wittler, Sven Rahmann, Faraz Hach, Jens Stoye:
Detecting high-scoring local alignments in pangenome graphs. Bioinform. 37(16): 2266-2274 (2021) - [j36]Julia Markowski, Rieke Kempfer, Alexander Kukalev, Ibai Irastorza-Azcarate, Gesa Loof, Birte Kehr, Ana Pombo, Sven Rahmann, Roland F. Schwarz:
GAMIBHEAR: whole-genome haplotype reconstruction from Genome Architecture Mapping data. Bioinform. 37(19): 3128-3135 (2021) - [j35]Felix Mölder, Ulrik Stervbo, Lucie Loyal, Petra Bacher, Nina Babel, Sven Rahmann:
Rapid T-cell receptor interaction grouping with ting. Bioinform. 37(20): 3444-3448 (2021) - [i10]Felix Mölder, Kim Philipp Jablonski, Brice Letcher, Michael B. Hall, Christopher Tomkins-Tinch, Vanessa V. Sochat, Jan Forster, Soohyun Lee, Sven Twardziok, Alexander Kanitz, Andreas Wilm, Manuel Holtgrewe, Sven Rahmann, Sven Nahnsen, Johannes Köster:
Sustainable data analysis with Snakemake. F1000Research 10: 33 (2021) - 2020
- [j34]Marius Wöste, Elsa Leitão, Sandra Laurentino, Bernhard Horsthemke, Sven Rahmann, Christopher Schröder:
wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data. BMC Bioinform. 21(1): 169 (2020) - [c41]Jens Zentgraf, Henning Timm, Sven Rahmann:
Cost-optimal assignment of elements in genome-scale multi-way bucketed Cuckoo hash tables. ALENEX 2020: 186-198 - [c40]Jens Zentgraf, Sven Rahmann:
Fast Lightweight Accurate Xenograft Sorting. WABI 2020: 4:1-4:16 - [c39]Elias Kuthe, Sven Rahmann:
Engineering Fused Lasso Solvers on Trees. SEA 2020: 23:1-23:14
2010 – 2019
- 2019
- [c38]Bianca K. Stöcker, Till Schäfer, Petra Mutzel, Johannes Köster, Nils M. Kriege, Sven Rahmann:
Protein Complex Similarity Based on Weisfeiler-Lehman Labeling. SISAP 2019: 308-322 - 2018
- [j33]Johannes Köster, Sven Rahmann:
Snakemake - a scalable bioinformatics workflow engine. Bioinform. 34(20): 3600 (2018) - [c37]Till Hartmann, Sven Rahmann:
Spalter: A Meta Machine Learning Approach to Distinguish True DNA Variants from Sequencing Artefacts. WABI 2018: 13:1-13:8 - 2017
- [j32]Christopher Schröder, Sven Rahmann:
A hybrid parameter estimation algorithm for beta mixtures and applications to methylation state classification. Algorithms Mol. Biol. 12(1): 21:1-21:12 (2017) - [c36]Jens Quedenfeld, Sven Rahmann:
Analysis of Min-Hashing for Variant Tolerant DNA Read Mapping. WABI 2017: 21:1-21:13 - [i9]Jens Quedenfeld, Sven Rahmann:
Variant tolerant read mapping using min-hashing. CoRR abs/1702.01703 (2017) - 2016
- [j31]Bianca K. Stöcker, Johannes Köster, Sven Rahmann:
SimLoRD: Simulation of Long Read Data. Bioinform. 32(17): 2704-2706 (2016) - [c35]Christopher Schröder, Sven Rahmann:
A Hybrid Parameter Estimation Algorithm for Beta Mixtures and Applications to Methylation State Classification. WABI 2016: 307-319 - 2015
- [j30]Dominik Kopczynski, Sven Rahmann:
An online peak extraction algorithm for ion mobility spectrometry data. Algorithms Mol. Biol. 10: 17 (2015) - [i8]Nina Hesse, Christopher Schröder, Sven Rahmann:
An optimization approach to detect differentially methylated regions from Whole Genome Bisulfite Sequencing data. PeerJ Prepr. 3: e1287 (2015) - [i7]Christopher Schröder, Sven Rahmann:
Efficient duplicate rate estimation from subsamples of sequencing libraries. PeerJ Prepr. 3: e1298 (2015) - [i6]Martin Eisenacher, Jörg Rahnenführer, Axel Mosig, Sven Rahmann:
Poster abstracts of GCB 2015. PeerJ Prepr. 3: e1350 (2015) - [i5]Axel Mosig, Jörg Rahnenführer, Martin Eisenacher, Sven Rahmann:
Invited presentations, junior research groups and research highlights at GCB 2015. PeerJ Prepr. 3: e1352 (2015) - 2014
- [j29]Marianna D'Addario, Dominik Kopczynski, Jörg Ingo Baumbach, Sven Rahmann:
A modular computational framework for automated peak extraction from ion mobility spectra. BMC Bioinform. 15: 25 (2014) - [c34]Dominik Kopczynski, Sven Rahmann:
An Online Peak Extraction Algorithm for Ion Mobility Spectrometry Data. WABI 2014: 232-246 - [i4]Johannes Köster, Sven Rahmann:
Massively parallel read mapping on GPUs with PEANUT. CoRR abs/1403.1706 (2014) - [i3]Dominik Kopczynski, Sven Rahmann:
Using the Expectation Maximization Algorithm with Heterogeneous Mixture Components for the Analysis of Spectrometry Data. CoRR abs/1405.5501 (2014) - 2013
- [j28]Manuel Allhoff, Alexander Schönhuth, Marcel Martin, Ivan G. Costa, Sven Rahmann, Tobias Marschall:
Discovering motifs that induce sequencing errors. BMC Bioinform. 14(S-5): S1 (2013) - [c33]Corinna Ernst, Sven Rahmann:
PanCake: A Data Structure for Pangenomes. GCB 2013: 35-45 - [c32]Marcel Martin, Sven Rahmann:
Aligning Flowgrams to DNA Sequences. GCB 2013: 125-135 - 2012
- [j27]Johannes Köster, Sven Rahmann:
Snakemake - a scalable bioinformatics workflow engine. Bioinform. 28(19): 2520-2522 (2012) - [j26]Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann:
Probabilistic Arithmetic Automata and Their Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 9(6): 1737-1750 (2012) - [c31]Stefan Canzar, Tobias Marschall, Sven Rahmann, Chris Schwiegelshohn:
Solving the Minimum String Cover Problem. ALENEX 2012: 75-83 - [c30]Dominik Kopczynski, Jörg Ingo Baumbach, Sven Rahmann:
Peak modeling for Ion mobility spectrometry measurements. EUSIPCO 2012: 1801-1805 - [c29]Johannes Köster, Sven Rahmann:
Building and Documenting Workflows with Python-Based Snakemake. GCB 2012: 49-56 - [c28]Marianna D'Addario, Nils M. Kriege, Sven Rahmann:
Designing q-Unique DNA Sequences with Integer Linear Programs and Euler Tours in De Bruijn Graphs. GCB 2012: 82-92 - 2011
- [j25]Tobias Marschall, Sven Rahmann:
An Algorithm to Compute the Character Access Count Distribution for Pattern Matching Algorithms. Algorithms 4(4): 285-306 (2011) - [j24]Stefan Wolfsheimer, Inke Herms, Sven Rahmann, Alexander K. Hartmann:
Accurate statistics for local sequence alignment with position-dependent scoring by rare-event sampling. BMC Bioinform. 12: 47 (2011) - [j23]Tobias Wittkop, Sven Rahmann, Richard Röttger, Sebastian Böcker, Jan Baumbach:
Extension and Robustness of Transitivity Clustering for Protein-Protein Interaction Network Analysis. Internet Math. 7(4): 255-273 (2011) - 2010
- [j22]Epameinondas Fritzilas, Martin Milanic, Sven Rahmann, Yasmín Á. Ríos-Solís:
Structural Identifiability in Low-Rank Matrix Factorization. Algorithmica 56(3): 313-332 (2010) - [j21]Tobias Wittkop, Sven Rahmann, Jan Baumbach:
Efficient Online Transcription Factor Binding Site Adjustment by Integrating Transitive Graph Projection with MoRAine 2.0. J. Integr. Bioinform. 7(3) (2010) - [c27]Markus Chimani, Sven Rahmann, Sebastian Böcker:
Exact ILP solutions for phylogenetic minimum flip problems. BCB 2010: 147-153 - [c26]Tobias Marschall, Sven Rahmann:
Exact Analysis of Horspool's and Sunday's Pattern Matching Algorithms with Probabilistic Arithmetic Automata. LATA 2010: 439-450 - [c25]Tobias Marschall, Sven Rahmann:
Speeding Up Exact Motif Discovery by Bounding the Expected Clump Size. WABI 2010: 337-349 - [i2]Tobias Marschall, Sven Rahmann:
Exact Analysis of Pattern Matching Algorithms with Probabilistic Arithmetic Automata. CoRR abs/1009.6114 (2010) - [i1]Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann:
Probabilistic Arithmetic Automata and their Applications. CoRR abs/1011.5778 (2010)
2000 – 2009
- 2009
- [j20]Jan Baumbach, Andreas Tauch, Sven Rahmann:
Towards the integrated analysis, visualization and reconstruction of microbial gene regulatory networks. Briefings Bioinform. 10(1): 75-83 (2009) - [j19]Tobias Marschall, Sven Rahmann:
Efficient exact motif discovery. Bioinform. 25(12) (2009) - [j18]Jan Baumbach, Sven Rahmann, Andreas Tauch:
Reliable transfer of transcriptional gene regulatory networks between taxonomically related organisms. BMC Syst. Biol. 3: 8 (2009) - [c24]Sven Rahmann, Tobias Marschall, Frank Behler, Oliver Kramer:
Modeling evolutionary fitness for DNA motif discovery. GECCO 2009: 225-232 - 2008
- [j17]Utz J. Pape, Sven Rahmann, Martin Vingron:
Natural similarity measures between position frequency matrices with an application to clustering. Bioinform. 24(3): 350-357 (2008) - [j16]Sérgio A. de Carvalho, Sven Rahmann:
Better GeneChip microarray Layouts by Combining Probe Placement and Embedding. J. Bioinform. Comput. Biol. 6(3): 623-641 (2008) - [j15]Utz J. Pape, Sven Rahmann, Fengzhu Sun, Martin Vingron:
Compound Poisson Approximation of the Number of Occurrences of a Position Frequency Matrix (PFM) on Both Strands. J. Comput. Biol. 15(6): 547-564 (2008) - [j14]Jan Baumbach, Tobias Wittkop, Jochen Weile, Thomas Kohl, Sven Rahmann:
MoRAine - A web server for fast computational transcription factor binding motif re-annotation. J. Integr. Bioinform. 5(2) (2008) - [j13]Cees H. Elzinga, Sven Rahmann, Hui Wang:
Algorithms for subsequence combinatorics. Theor. Comput. Sci. 409(3): 394-404 (2008) - [c23]Epameinondas Fritzilas, Yasmín Á. Ríos-Solís, Sven Rahmann:
Structural Identifiability in Low-Rank Matrix Factorization. COCOON 2008: 140-148 - [c22]Tobias Marschall, Sven Rahmann:
Probabilistic Arithmetic Automata and Their Application to Pattern Matching Statistics. CPM 2008: 95-106 - [c21]Inke Herms, Sven Rahmann:
Computing Alignment Seed Sensitivity with Probabilistic Arithmetic Automata. WABI 2008: 318-329 - 2007
- [j12]Tobias Wittkop, Jan Baumbach, Francisco Pereira Lobo, Sven Rahmann:
Large scale clustering of protein sequences with FORCE -A layout based heuristic for weighted cluster editing. BMC Bioinform. 8 (2007) - [j11]Heiko Neuweger, Jan Baumbach, Stefan P. Albaum, Thomas Bekel, Michael Dondrup, Andrea T. Hüser, Jörn Kalinowski, Sebastian Oehm, Alfred Pühler, Sven Rahmann, Jochen Weile, Alexander Goesmann:
CoryneCenter - An online resource for the integrated analysis of corynebacterial genome and transcriptome data. BMC Syst. Biol. 1: 55 (2007) - [j10]Gunnar W. Klau, Sven Rahmann, Alexander Schliep, Martin Vingron, Knut Reinert:
Integer linear programming approaches for non-unique probe selection. Discret. Appl. Math. 155(6-7): 840-856 (2007) - [j9]Daniel Gerlach, Matthias Wolf, Thomas Dandekar, Tobias Müller, Andreas Pokorny, Sven Rahmann:
Deep Metazoan Phylogeny. Silico Biol. 7(2): 151-154 (2007) - [j8]Jan Baumbach, Alexander Bunkowski, Sita Lange, Timm Oberwahrenbrock, Nils Kleinbölting, Sven Rahmann, Jörg Ingo Baumbach:
IMS2 - An integrated medical software system for early lung cancer detection using ion mobility spectrometry data of human breath. J. Integr. Bioinform. 4(3) (2007) - 2006
- [j7]Jan Baumbach, Karina Brinkrolf, Tobias Wittkop, Andreas Tauch, Sven Rahmann:
CoryneRegNet 2: An Integrative Bioinformatics Approach for Reconstruction and Comparison of Transcriptional Regulatory Networks in Prokaryotes. J. Integr. Bioinform. 3(2) (2006) - [c20]Sven Rahmann:
Subsequence Combinatorics and Applications to Microarray Production, DNA Sequencing and Chaining Algorithms. CPM 2006: 153-164 - [c19]Sérgio A. de Carvalho, Sven Rahmann:
Microarray Layout as Quadratic Assignment Problem. German Conference on Bioinformatics 2006: 11-20 - [c18]Christian Höner zu Siederdissen, Susanne Ragg, Sven Rahmann:
Discovering Biomarkers for Myocardial Infarction from SELDI-TOF Spectra. GfKl 2006: 569-576 - [c17]Alexander Schliep, Sven Rahmann:
Decoding non-unique oligonucleotide hybridization experiments of targets related by a phylogenetic tree. ISMB (Supplement of Bioinformatics) 2006: 424-430 - [c16]Hans-Michael Kaltenbach, Sebastian Böcker, Sven Rahmann:
Markov Additive Chains and Applications to Fragment Statistics for Peptide Mass Fingerprinting. Systems Biology and Computational Proteomics 2006: 29-41 - [c15]Sven Rahmann, Gunnar W. Klau:
Integer Linear Programs for Discovering Approximate Gene Clusters. WABI 2006: 298-309 - [c14]Sérgio A. de Carvalho, Sven Rahmann:
Improving the Layout of Oligonucleotide Microarrays: Pivot Partitioning. WABI 2006: 321-332 - 2005
- [j6]Stefan Roepcke, Steffen Grossmann, Sven Rahmann, Martin Vingron:
T-Reg Comparator: an analysis tool for the comparison of position weight matrices. Nucleic Acids Res. 33(Web-Server-Issue): 438-441 (2005) - [c13]Mathew J. Palakal, Sven Rahmann, Birong Liao:
Editorial message: special track on bioinformatics. SAC 2005: 99 - 2004
- [b1]Sven Rahmann:
Algorithms for probe selection and DNA microarray design. FU Berlin, 2004, pp. I-XVIII, 1-188 - [j5]Sven Rahmann, Christine Gräfe:
Mean and variance of the Gibbs free energy of oligonucleotides in the nearest neighbor model under varying conditions. Bioinform. 20(17): 2928-2933 (2004) - [j4]Benjamin Schuster-Böckler, Jörg Schultz, Sven Rahmann:
HMM Logos for visualization of protein families. BMC Bioinform. 5: 7 (2004) - [c12]Christoph Dieterich, Sven Rahmann, Martin Vingron:
Functional inference from non-random distributions of conserved predicted transcription factor binding sites. ISMB/ECCB (Supplement of Bioinformatics) 2004: 109-115 - [c11]Gunnar W. Klau, Sven Rahmann, Alexander Schliep, Martin Vingron, Knut Reinert:
Optimal robust non-unique probe selection using Integer Linear Programming. ISMB/ECCB (Supplement of Bioinformatics) 2004: 186-193 - [p1]Sven Rahmann:
Algorithmen für das Design von DNA-Microarrays. Ausgezeichnete Informatikdissertationen 2004: 145-154 - 2003
- [j3]Sven Rahmann, Eric Rivals:
On The Distribution Of The Number Of Missing Words In Random Texts. Comb. Probab. Comput. 12(1): 73-87 (2003) - [j2]Sven Rahmann:
Fast Large Scale Oligonucleotide Selection Using the Longest Common Factor Approach. J. Bioinform. Comput. Biol. 1(2): 343-362 (2003) - [j1]Eric Rivals, Sven Rahmann:
Combinatorics of periods in strings. J. Comb. Theory A 104(1): 95-113 (2003) - [c10]Sven Rahmann:
Fast and Sensitive Probe Selection for DNA Chips Using Jumps in Matching Statistics. CSB 2003: 57-64 - [c9]Alexander Schliep, David C. Torney, Sven Rahmann:
Group Testing With DNA Chips: Generating Designs and Decoding Experiments. CSB 2003: 84-93 - [c8]Sven Rahmann:
The shortest common supersequence problem in a microarray production setting. ECCB 2003: 156-161 - [c7]Tobias Müller, Sven Rahmann, Thomas Dandekar, Matthias Wolf:
Robust estimation of the phylogeny of Chlorophyceae(Chlorophyta)based on profile distances. German Conference on Bioinformatics 2003: 97-101 - [c6]Sven Rahmann:
Dynamic Programming Algorithms for Two Statistical Problems in Computational Biology. WABI 2003: 151-164 - 2002
- [c5]Sven Rahmann:
Rapid Large-Scale Oligonucleotide Selection for Microarrays. CSB 2002: 54-63 - [c4]Sven Rahmann:
Rapid Large-Scale Oligonucleotide Selection for Microarrays. WABI 2002: 434 - 2001
- [c3]Eric Rivals, Sven Rahmann:
Combinatorics of Periods in Strings. ICALP 2001: 615-626 - [c2]Tobias Müller, Sven Rahmann, Marc Rehmsmeier:
Non-symmetric score matrices and the detection of homologous transmembrane proteins. ISMB (Supplement of Bioinformatics) 2001: 182-189 - 2000
- [c1]Sven Rahmann, Eric Rivals:
Exact and Efficient Computation of the Expected Number of Missing and Common Words in Random Texts. CPM 2000: 375-387
Coauthor Index
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