Sven Rahmann

Johannes Köster, Sven Rahmann: Snakemake - a scalable bioinformatics workflow engine. Bioinformatics 28(19): 2520-2522 (2012)

Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann: Probabilistic Arithmetic Automata and Their Applications. IEEE/ACM Trans. Comput. Biology Bioinform. 9(6): 1737-1750 (2012)

Stefan Canzar, Tobias Marschall, Sven Rahmann, Chris Schwiegelshohn: Solving the Minimum String Cover Problem. ALENEX 2012: 75-83

Johannes Köster, Sven Rahmann: Building and Documenting Workflows with Python-Based Snakemake. GCB 2012: 49-56

Marianna D'Addario, Nils Kriege, Sven Rahmann: Designing q-Unique DNA Sequences with Integer Linear Programs and Euler Tours in De Bruijn Graphs. GCB 2012: 82-92

Tobias Marschall, Sven Rahmann: An Algorithm to Compute the Character Access Count Distribution for Pattern Matching Algorithms. Algorithms 4(4): 285-306 (2011)

Stefan Wolfsheimer, Inke Herms, Sven Rahmann, Alexander K. Hartmann: Accurate statistics for local sequence alignment with position-dependent scoring by rare-event sampling. BMC Bioinformatics 12: 47 (2011)

Tobias Wittkop, Sven Rahmann, Richard Röttger, Sebastian Böcker, Jan Baumbach: Extension and Robustness of Transitivity Clustering for Protein-Protein Interaction Network Analysis. Internet Mathematics 7(4): 255-273 (2011)

Epameinondas Fritzilas, Martin Milanic, Sven Rahmann, Yasmin A. Rios-Solis: Structural Identifiability in Low-Rank Matrix Factorization. Algorithmica 56(3): 313-332 (2010)

Tobias Wittkop, Sven Rahmann, Jan Baumbach: Efficient Online Transcription Factor Binding Site Adjustment by Integrating Transitive Graph Projection with MoRAine 2.0. J. Integrative Bioinformatics 7(3) (2010)

Markus Chimani, Sven Rahmann, Sebastian Böcker: Exact ILP solutions for phylogenetic minimum flip problems. BCB 2010: 147-153

Tobias Marschall, Sven Rahmann: Exact Analysis of Horspool's and Sunday's Pattern Matching Algorithms with Probabilistic Arithmetic Automata. LATA 2010: 439-450

Tobias Marschall, Sven Rahmann: Speeding Up Exact Motif Discovery by Bounding the Expected Clump Size. WABI 2010: 337-349

Tobias Marschall, Sven Rahmann: Exact Analysis of Pattern Matching Algorithms with Probabilistic Arithmetic Automata. CoRR abs/1009.6114 (2010)

Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann: Probabilistic Arithmetic Automata and their Applications. CoRR abs/1011.5778 (2010)

Jan Baumbach, Andreas Tauch, Sven Rahmann: Towards the integrated analysis, visualization and reconstruction of microbial gene regulatory networks. Briefings in Bioinformatics 10(1): 75-83 (2009)

Tobias Marschall, Sven Rahmann: Efficient exact motif discovery. Bioinformatics 25(12) (2009)

Sven Rahmann, Tobias Marschall, Frank Behler, Oliver Kramer: Modeling evolutionary fitness for DNA motif discovery. GECCO 2009: 225-232

Utz J. Pape, Sven Rahmann, Martin Vingron: Natural similarity measures between position frequency matrices with an application to clustering. Bioinformatics 24(3): 350-357 (2008)

Sérgio A. de Carvalho, Sven Rahmann: Better GeneChip microarray Layouts by Combining Probe Placement and Embedding. J. Bioinformatics and Computational Biology 6(3): 623-641 (2008)

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. Journal of Computational Biology 15(6): 547-564 (2008)

Jan Baumbach, Tobias Wittkop, Jochen Weile, Thomas Kohl, Sven Rahmann: MoRAine - A web server for fast computational transcription factor binding motif re-annotation. J. Integrative Bioinformatics 5(2) (2008)

Cees H. Elzinga, Sven Rahmann, Hui Wang: Algorithms for subsequence combinatorics. Theor. Comput. Sci. 409(3): 394-404 (2008)

Epameinondas Fritzilas, Yasmin A. Rios-Solis, Sven Rahmann: Structural Identifiability in Low-Rank Matrix Factorization. COCOON 2008: 140-148

Tobias Marschall, Sven Rahmann: Probabilistic Arithmetic Automata and Their Application to Pattern Matching Statistics. CPM 2008: 95-106

Inke Herms, Sven Rahmann: Computing Alignment Seed Sensitivity with Probabilistic Arithmetic Automata. WABI 2008: 318-329

Tobias Wittkop, Jan Baumbach, Francisco P. Lobo, Sven Rahmann: Large scale clustering of protein sequences with FORCE -A layout based heuristic for weighted cluster editing. BMC Bioinformatics 8 (2007)

Gunnar W. Klau, Sven Rahmann, Alexander Schliep, Martin Vingron, Knut Reinert: Integer linear programming approaches for non-unique probe selection. Discrete Applied Mathematics 155(6-7): 840-856 (2007)

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. Integrative Bioinformatics 4(3) (2007)

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. Integrative Bioinformatics 3(2) (2006)

Sven Rahmann: Subsequence Combinatorics and Applications to Microarray Production, DNA Sequencing and Chaining Algorithms. CPM 2006: 153-164

Sérgio A. de Carvalho, Sven Rahmann: Microarray Layout as Quadratic Assignment Problem. German Conference on Bioinformatics 2006: 11-20

Christian Höner zu Siederdissen, Susanne Ragg, Sven Rahmann: Discovering Biomarkers for Myocardial Infarction from SELDI-TOF Spectra. GfKl 2006: 569-576

Alexander Schliep, Sven Rahmann: Decoding non-unique oligonucleotide hybridization experiments of targets related by a phylogenetic tree. ISMB (Supplement of Bioinformatics) 2006: 424-430

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

Sven Rahmann, Gunnar W. Klau: Integer Linear Programs for Discovering Approximate Gene Clusters. WABI 2006: 298-309

Sérgio A. de Carvalho, Sven Rahmann: Improving the Layout of Oligonucleotide Microarrays: Pivot Partitioning. WABI 2006: 321-332

Stefan Roepcke, Steffen Grossmann, Sven Rahmann, Martin Vingron: T-Reg Comparator: an analysis tool for the comparison of position weight matrices. Nucleic Acids Research 33(Web-Server-Issue): 438-441 (2005)

Mathew J. Palakal, Sven Rahmann, Birong Liao: Editorial message: special track on bioinformatics. SAC 2005: 99

Sven Rahmann: Algorithms for probe selection and DNA microarray design. FU Berlin 2004, pp. I-XVIII, 1-188

Sven Rahmann, Christine Gräfe: Mean and variance of the Gibbs free energy of oligonucleotides in the nearest neighbor model under varying conditions. Bioinformatics 20(17): 2928-2933 (2004)

Benjamin Schuster-Böckler, Jörg Schultz, Sven Rahmann: HMM Logos for visualization of protein families. BMC Bioinformatics 5: 7 (2004)

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

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

Sven Rahmann, Eric Rivals: On The Distribution Of The Number Of Missing Words In Random Texts. Combinatorics, Probability & Computing 12(1): 73-87 (2003)

Sven Rahmann: Fast Large Scale Oligonucleotide Selection Using the Longest Common Factor Approach. J. Bioinformatics and Computational Biology 1(2): 343-362 (2003)

Eric Rivals, Sven Rahmann: Combinatorics of periods in strings. J. Comb. Theory, Ser. A 104(1): 95-113 (2003)

Sven Rahmann: Fast and Sensitive Probe Selection for DNA Chips Using Jumps in Matching Statistics. CSB 2003: 57-64

Alexander Schliep, David C. Torney, Sven Rahmann: Group Testing With DNA Chips: Generating Designs and Decoding Experiments. CSB 2003: 84-93

Sven Rahmann: The shortest common supersequence problem in a microarray production setting. ECCB 2003: 156-161

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

Sven Rahmann: Dynamic Programming Algorithms for Two Statistical Problems in Computational Biology. WABI 2003: 151-164

Sven Rahmann: Rapid Large-Scale Oligonucleotide Selection for Microarrays. CSB 2002: 54-63

Sven Rahmann: Rapid Large-Scale Oligonucleotide Selection for Microarrays. WABI 2002: 434

Eric Rivals, Sven Rahmann: Combinatorics of Periods in Strings. ICALP 2001: 615-626

Tobias Müller, Sven Rahmann, Marc Rehmsmeier: Non-symmetric score matrices and the detection of homologous transmembrane proteins. ISMB (Supplement of Bioinformatics) 2001: 182-189

Sven Rahmann, Eric Rivals: Exact and Efficient Computation of the Expected Number of Missing and Common Words in Random Texts. CPM 2000: 375-387