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421 Publikationen

2007 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 1918828
Schmidt, Thomas, and Stoye, Jens. “Chapter 12: Gecko and GhostFam - Rigorous and Efficient Gene Cluster Detection in Prokaryotic Genomes”. Comparative Genomics, Volume 2. Ed. Nicholas H. Bergman. Totowa, NJ: Humana Press Inc., 2007.Vol. 396. Methods in Molecular Biology. 165-182.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499284
Cicalese, Ferdinando, Damaschke, Peter, Tansini, Libertad, and Werth, Soeren. “Overlaps help: Improved bounds for group testing with interval queries”. Discrete Applied Mathematics 155.3 (2007): 288-299.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499429
Gerlach, D., Wolf, M., Dandekar, T., Müller, T., Pokorny, A., and Rahmann, S. “Deep Metazoan Phylogeny”. In Silico Biology 7 (2007): Article 15.
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2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499467
Lozin, V.V., and Milanic, M. “Maximum independent sets in graphs of low degree”. Proc. 18th Annual ACM-SIAM Symposium on Discrete Algorithms (SODA 2007). 2007. 874-880.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499481
Rahmann, S., Wittkop, T., Baumbach, J., Martin, M., Truss, A., and Böcker, S. “Exact and Heuristic Algorithms for Weighted Cluster Editing”. Comput Syst Bioinformatics Conf 6.1 (2007): 391-401.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499135
Baumbach, Jan, Bunkowski, Alexander, Lange, Sita, Oberwahrenbrock, Timm, Kleinbölting, Nils, Rahmann, Sven, and Baumbach, Jörg Ingo. “IMS2- An integrated medical software system for early lung cancer detection using ion mobility spectrometry data of human breath”. Journal of Integrative Bioinformatics 4.3 (2007): 75.
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2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499279
Cicalese, Ferdinando, and Amgarten Quitzau, José Augusto. “2-Stage Fault Tolerant Interval Group Testing”. Algorithms and Computation. 18th International Symposium, ISAAC 2007, Sendai, Japan, December 17-19, 2007. Proceedings. Ed. Takeshi Tokuyama. 2007. Lecture notes in computer science, 4835. 858-868.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499125
Baake, E., and Herms, I. “Single-Crossover Dynamics: Finite versus Infinite Populations.”. Bull. Math. Biol. 70.2 (2007): 603-624.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499132
Baumbach, J. “CoryneRegNet 4.0 – A reference database for corynebacterial gene regulatory networks.”. BMC Bioinformatics 8.1 (2007): 429.
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2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499168
Carvalho Jr. de, S.A., and Rahmann, S. “Improving the design of GeneChip arrays by combining placement and embedding”. Computational Systems Bioformatics Conference. 2007. 417-427.
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2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499442
Höner zu Siederdissen, Christian, Ragg, Susanne, and Rahmann, Sven. “Discovering biomarkers for myocardial infarction from SELDI-TOF spectra”. Advances in Data Analysis. Proceedings of the 30th Annual Conference of the Gesellschaft für Klassifikation e.V. Springer, 2007. Studies in Classification, Data Analysis, and Knowledge Organization. 569-576.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1631047
Meisinger-Henschel, Christine, Schmidt, Michaela, Lukassen, Susanne, Linke, Burkhard, Krause, Lutz, Konietzny, Sebastian, Goesmann, Alexander, Howley, Paul, Chaplin, Paul, Suter, Mark, and Hausmann, Juergen. “Genomic sequence of chorioallantois vaccinia virus Ankara, the ancestor of modified vaccinia virus Ankara”. JOURNAL OF GENERAL VIROLOGY 88.12 (2007): 3249-3259.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1918432
Didier, Gilles, Schmidt, Thomas, Stoye, Jens, and Tsur, Dekel. “Character Sets of Strings”. Journal of Discrete Algorithms 5.2 (2007): 330-340.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783712 OA
Kaltenbach, Hans-Michael, Wilke, Andreas, and Böcker, Sebastian. “SAMPI: protein identification with mass spectra alignments”. BMC Bioinformatics 8.1 (2007): 102.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783754 OA
Neuweger, Heiko, Baumbach, Jan, Albaum, Stefan, Bekel, Thomas, Dondrup, Michael, Hüser, Andrea T., Kalinowski, Jörn, Oehm, Sebastian, Pühler, Alfred, Rahmann, Sven, Weile, Jochen, and Goesmann, Alexander. “CoryneCenter: an online resource for the integrated analysis of corynebacterial genome and transcriptome data”. BMC Systems Biology 1.1 (2007): 55.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1631327
Schneiker-Bekel, Susanne, Perlova, Olena, Kaiser, Olaf, Gerth, Klaus, Alici, Aysel, Altmeyer, Matthias O., Bartels, Daniela, Bekel, Thomas, Beyer, Stefan, Bode, Edna, Bode, Helge B., Bolten, Christoph J., Choudhuri, Jomuna V., Doss, Sabrina, Elnakady, Yasser A., Frank, Bettina, Gaigalat, Lars, Goesmann, Alexander, Groeger, Carolin, Gross, Frank, Jelsbak, Lars, Jelsbak, Lotte, Kalinowski, Jörn, Kegler, Carsten, Knauber, Tina, Konietzny, Sebastian, Kopp, Maren, Krause, Lutz, Krug, Daniel, Linke, Burkhard, Mahmud, Taifo, Martinez-Arias, Rosa, McHardy, Alice C., Merai, Michelle, Meyer, Folker, Mormann, Sascha, Munoz-Dorado, Jose, Perez, Juana, Pradella, Silke, Rachid, Shwan, Raddatz, Guenter, Rosenau, Frank, Rückert, Christian, Sasse, Florenz, Scharfe, Maren, Schuster, Stephan C., Suen, Garret, Treuner-Lange, Anke, Velicer, Gregory J., Vorhölter, Frank-Jörg, Weissman, Kira J., Welch, Roy D., Wenzel, Silke C., Whitworth, David E., Wilhelm, Susanne, Wittmann, Christoph, Bloecker, Helmut, Pühler, Alfred, and Mueller, Rolf. “Complete genome sequence of the myxobacterium Sorangium cellulosum”. Nature Biotechnology 25.11 (2007): 1281-1289.
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2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1902192
Välimäki, Niko, Gerlach, Wolfgang, Dixit, Kashyap, and Mäkinen, Veli. “Engineering a Compressed Suffix Tree Implementation”. Proceedings of 6th Workshop on Experimental Algorithms (WEA'07). Springer-Verlag, 2007. 217-228.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1594917
Välimäki, Niko, Gerlach, Wolfgang, Dixit, Kashyap, and Mäkinen, Veli. “Compressed suffix tree - a basis for genome-scale sequence analysis”. BIOINFORMATICS 23.5 (2007): 629-630.
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2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1594020
Baumbach, Jan, Wittkop, Tobias, Rademacher, Katrin, Rahmann, Sven, Brinkrolf, Karina, and Tauch, Andreas. “CoryneRegNet 3.0 - An interactive systems biology platform for the analysis of gene regulatory networks in corynebacteria and Escherichia coli”. JOURNAL OF BIOTECHNOLOGY 129.2 (2007): 279-289.
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2007 | Bielefelder E-Dissertation | PUB-ID: 2303359 OA
Schürmann, Klaus-Bernd. Suffix arrays in theory and practice. Bielefeld (Germany): Bielefeld University, 2007.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1595253
Schürmann, Klaus-Bernd, and Stoye, Jens. “An incomplex algorithm for fast suffix array construction”. SOFTWARE-PRACTICE & EXPERIENCE 37.3 (2007): 309-329.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1630749
Lessmann, B., Nattkemper, Tim Wilhelm, Hans, V. H., and Degenhard, A. “A method for linking computed image features to histological semantics in neuropathology”. Journal of Biomedical Informatics 40.6 (2007): 631-641.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783345 OA
Krause, Lutz, McHardy, Alice C., Nattkemper, Tim Wilhelm, Pühler, Alfred, Stoye, Jens, and Meyer, Folker. “GISMO - gene identification using a support vector machine for ORF classification”. Nucleic Acids Research 35.2 (2007): 540-549.
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2007 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2018416
Nattkemper, Tim Wilhelm, Degenhard, Andreas, and Twellmann, Thorsten. “Breas”. Cancer Imaging - Lung and breast carcinomas. Ed. M. A. Hayat. Academic Press, 2007.Vol. 1. 309-324.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1630781
Mellmann, Alexander, Weniger, Thomas, Berssenbrügge, Christoph, Rothgänger, Jörg, Sammeth, Michael, Stoye, Jens, and Harmsen, Dag. “Based Upon Repeat Pattern (BURP): an algorithm to characterize the long-term evolution of Staphylococcus aureus populations based on spa polymorphisms”. BMC MICROBIOLOGY 7.1 (2007): 98.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499677
Cicalese, Ferdinando, and Laber, E. “On the Competitive Ratio of Evaluating Priced Functions”. Proc. 17th Annual ACM-SIAM Symposium on Discrete Algorithms (SODA 2006). 2006. 944-953.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1596815
Rahmann, Sven, and Klau, Gunnar W. “Integer linear programs for discovering approximate gene clusters”. Algorithms in Bioinformatics. WABI 2006. Ed. P. Bücher and B.M.E. Moret. Berlin: Springer, 2006.Vol. 4175. Lecture Notes in Computer Science. 298-309.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2374232
Varini, Claudio, Lessmann, Birgit, Degenhard, Andreas, Hans, Volkmar H., and Nattkemper, Tim Wilhelm. “Visual Exploration of Pathology Images by a Discrete Wavelet Transform Preprocessed Locally Linear Embedding.”. Bildverarbeitung für die Medizin. Ed. Heinz Handels, Jan Ehrhardt, Alexander Horsch, Hans-Peter Meinzer, and Thomas Tolxdorff. Springer, 2006. 66-70.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499511
Böcker, S. “Sequencing from Compomers: The Puzzle”. Theor. Comput. Syst. 39.3 (2006): 455-471.
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2006 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2499624
Cicalese, Ferdinando, and Deppe, Christian. “Q-ary Ulam-Rényi game with constrained lies”. General Theory of Information Transfer and Combinatorics. Ed. Rudolf Ahlswede, Lars Bäumer, Ning Cai, Harout Aydinian, Vladimir Blinovsky, Christian Deppe, and Haik Masurian. Springer, 2006.Vol. 4123. Lecture notes in computer science. 663-679.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2659363
Feijão, Pedro, Neiva, L. S., Azeredo-Espin, A. M. L. d., and Lessinger, A. C. “AMiGA: the arthropodan mitochondrial genomes accessible database”. Bioinformatics 22.7 (2006): 902-903.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2374254
Lessmann, Birgit, Nattkemper, Tim Wilhelm, Huth, Johannes, Loyek, Christian, Kessar, Preminda, Khazen, Michael, Pointon, Linda, Leach, Martin O., and Degenhard, Andreas. “Content Based Image Retrieval for Dynamic Time Series Data”. Proceedings of BVM. 2006. 61-65.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2374494
Timm, Wiebke, Böcker, Sebastian, Twellmann, Thorsten, and Nattkemper, Tim Wilhelm. “Peak intensity prediction for pmf mass spectra using support vector regression”. Proc. of the 7th International FLINS Conference on Applied Artificial Intelligence. 2006. 565-572.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499499
Baumbach, Jan, Brinkrolf, Karina, Wittkop, Tobias, Tauch, Andreas, and Rahmann, Sven. “CoryneRegNet 2: An integrative bioinformatics approach for reconstruction and comparison of transcriptional regulatory networks in prokaryotes”. Journal of Integrative Bioinformatics 3.2 (2006): 24.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1902179
Gerlach, Wolfgang, and Giegerich, Robert. “GUUGle: a utility for fast exact matching under RNA complementary rules including G-U base pairing.”. Bioinformatics 22.6 (2006): 762-764.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499664
Cicalese, F., Gargano, L., and Vaccaro, U. “A Note on Approximation of Uniform Distributions from Variable-to-Fixed Length Codes”. IEEE Transactions on Information Theory 52.8 (2006): 3772-3777.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499515
Böcker, S., Pervukhin, A., Lipták, Zs., and Letzel, M. “Decomposing metabolomic isotope patterns”. Proc. WABI. 2006.Vol. 4175. 12-23.
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2006 | Bielefelder E-Dissertation | PUB-ID: 2305885 OA
Taher, Leila. Computational methods for splice site prediction. Bielefeld (Germany): Bielefeld University, 2006.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499562
Carvalho Jr. de, Sergio Anibal, and Rahmann, Sven. “Improving the layout of oligonucleotide microarrays: Pivot Partitioning”. Proc. 6th Workshop of Algorithms in Bioinformatics. 2006.Vol. 4175. 321-332.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1599943
Sammeth, Michael, Griebel, Thasso, Tille, Felix, and Stoye, Jens. “Panta rhei (QAlign2): an open graphical environment for sequence analysis”. BIOINFORMATICS 22.7 (2006): 889-890.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1599570
Rasmussen, Kim R., Stoye, Jens, and Myers, Eugene W. “Efficient q-gram filters for finding all epsilon-matches over a given length”. JOURNAL OF COMPUTATIONAL BIOLOGY 13.2 (2006): 296-308.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1599574
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. “On sorting by translocations”. JOURNAL OF COMPUTATIONAL BIOLOGY 13.2 (2006): 567-578.
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2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1596811
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. “A Unifying View of Genome Rearrangements”. Proc. of WABI 2006. SPRINGER-VERLAG BERLIN, 2006.Vol. 4175. LNBI. 163-173.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1597213
Sammeth, Michael, and Stoye, Jens. “Comparing tandem repeats with duplications and excisions of variable degree”. IEEE/ACM Transactions on Computational Biology and Bioinformatics 3.4 (2006): 395-407.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1597313
Bergeron, Anne, and Stoye, Jens. “On the similarity of sets of permutations and its applications to genome comparison”. JOURNAL OF COMPUTATIONAL BIOLOGY 13.7 (2006): 1340-1354.
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2006 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1918946
Stoye, Jens. “Index Structures in Biological Sequence Analysis: From Simplicity to Complexity and Back”. Presented at the JOBIM 2006, Bordeaux, France, 2006.
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2006 | Report | PUB-ID: 1970464 OA
Chauve, Cedric, Diekmann, Yoan, Heber, Steffen, Mixtacki, Julia, Rahmann, Sven, and Stoye, Jens. On Common Intervals with Errors. Bielefeld: Technische Fakultät der Universität Bielefeld, 2006. Forschungsberichte.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773632 OA
Baumbach, Jan, Brinkrolf, Karina, Czaja, Lisa F., Rahmann, Sven, and Tauch, Andreas. “CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks”. BMC Genomics 7.1 (2006): 24.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1631957
Krause, Lutz, Diaz, Naryttza N., Bartels, Daniela, Edwards, Robert A., Pühler, Alfred, Rohwer, Forest, Meyer, Folker, and Stoye, Jens. “Finding novel genes in bacterial communities isolated from the environment”. BIOINFORMATICS 22.14 (2006): e281-e289.
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2005 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2309191
Rahmann, Sven. “Algorithmen für das Design von DNA-Microarrays”. Ausgezeichnete Informatikdissertationen 2004. Ed. Dorothea Wagner. Bonn: Ges. für Informatik , 2005.Vol. 5. Lecture Notes in Informatics. 145-154.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773695 OA
Röpcke, Stefan, Grossmann, Steffen, Rahmann, Sven, and Vingron, Martin. “T-Reg Comparator: an analysis tool for the comparison of position weight matrices”. Nucleic Acids Research 33.Web Server (2005): W438-W441.
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2005 | Bielefelder E-Dissertation | PUB-ID: 2302056 OA
Lipták, Zsuzsanna. Strings in proteomics and transcriptomics : algorithmic and combinatorial questions in mass spectrometry and EST clustering. Bielefeld (Germany): Bielefeld University, 2005.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1601941
Grossmann, Jonas, Roos, Franz F., Cieliebak, Mark, Lipták, Zsuzsanna, Mathis, Lukas K., Müller, Matthias, Gruissem, Wilhelm, and Baginsky, Sacha. “AUDENS: A tool for automated peptide de novo sequencing”. Journal of Proteome Research 4.5 (2005): 1768-1774.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1603101
Cicalese, Ferdinando, Damaschke, Peter, and Vaccaro, Ugo. “Optimal group testing strategies with interval queries and their application to splice site detection”. Computational Science – ICCS 2005. 5th International Conference, Atlanta, GA, USA, May 22-25, 2005. Proceedings, Part II. Ed. Vaidy S. Sunderam, Geert Dick van Albada, Peter M. A. Sloot, and Jack J. Dongarra. Berlin: Springer, 2005.Vol. 3515. Lecture Notes in Computer Science. 1029-1037.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1601085
Cicalese, Ferdinando, and Laber, Eduardo Sany. “An optimal algorithm for querying priced information: Monotone Boolean functions and game trees”. Algorithms – ESA 2005. 13th Annual European Symposium, Palma de Mallorca, Spain, October 3-6, 2005. Proceedings. Ed. Gerth Stølting Brodal and Stefano Leonardi. Berlin: Springer, 2005.Vol. 3669. Lecture Notes in Computer Science. 664-676.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2308882
Cicalese, F., and Deppe, C. “Q-ary Ulam-Rényi game with constrained lies”. Electronic Notes in Discrete Mathematics 21 (2005): 255-261.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2374546
Saalbach, Axel, Twellmann, Thorsten, Nattkemper, Tim Wilhelm, Wismüller, Axel, Ontrup, Jörg, and Ritter, Helge. “A hyperbolic topographic mapping for proximity data”. Proc. of the IASTED International Conference of Artificial Intelligence and Applications. 2005.Vol. 2005. 106-111.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2374666
Twellmann, Thorsten, Lichte, Oliver, Saalbach, Axel, Wismüller, Axel, and Nattkemper, Tim Wilhelm. “An Adaptive Colour Scale for Comparison of Pseudo Colouring Techniques for DCE-MRI Data”. Presented at the Workshop für Bildverarbeiteung für die Medzin, Workshop für Bildverarbeituing für die Medizin 2005, 2005.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2500567
Mäkinen, V., and Navarro, G. “Succinct Suffix Arrays based on Run-Length Encoding”. Proc. 16th Annual Symposium on Combinatorial Pattern Matching (CPM 2005). 2005.Vol. 3537. 45-56.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2374187
Saalbach, Axel, Ontrup, Jörg, Ritter, Helge, and Nattkemper, Tim Wilhelm. “Image fusion based on topographic mappings using the hyperbolic space”. Information Visualization 4.4 (2005): 266-275.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2500564
Mäkinen, V. “Peak Alignment using Restricted Edit Distances”. Proc. 6th International Symposium on Computational Biology and Genome Informatics (CBGI 2005). 2005.
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2005 | Report | PUB-ID: 1970470 OA
Sammeth, Michael, and Stoye, Jens. Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI). Bielefeld: Technische Fakultät der Universität Bielefeld, 2005. Forschungsberichte.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2308909
Cicalese, F., and Laber, E. S. “A new strategy for querying priced information.”. Proc. 37th Annual ACM Symposium on Theory of Computing (STOC 2005). 2005. 674-683.
PUB
 
2005 | Bielefelder E-Dissertation | PUB-ID: 2306287 OA
Schmidt, Thomas. Efficient algorithms for gene cluster detection in prokaryotic genomes. Bielefeld (Germany): Bielefeld University, 2005.
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2005 | Report | Veröffentlicht | PUB-ID: 2308848
Carvalho Jr. de, S., and Rahmann, S. Searching for the Shortest Common Supersequence. Technische Fakultät der Universität Bielefeld, Abteilung Informationstechnik, 2005.
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2005 | Report | Veröffentlicht | PUB-ID: 2308862
Cicalese, F., Damaschke, P., Tansini, L., and Werth, S. Overlaps Help: Improved Bounds for Group Testing with Interval Queries. Technische Fakultät der Universität Bielefeld, Abteilung Informationstechnik, 2005.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2308867
Cicalese, Ferdinando, Damaschke, Peter, Tansini, Libertad, and Werth, Soeren. “Overlaps Help: Improved Bounds for Group Testing with Interval Queries”. Proc. 11th Annual International Conference on Computing and Combinatorics (COCOON 2005). 2005. Lecture Notes in Computer Science, 3595. 935-944.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2308944
Ehrich, M., Böcker, S., and Boom van den, D. “Multiplexed discovery of sequence polymorphisms using base-specific cleavage and MALDI-TOF MS”. Nucleic Acids Res. 33.4 (2005): e38.
PUB | DOI | WoS | PubMed | Europe PMC
 
2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919012
Schürmann, Klaus-Bernd, and Stoye, Jens. “An Incomplex Algorithm for Fast Suffix Array Construction”. Proc. of ALENEX/ANALCO 2005. 2005. 77-85.
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2005 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 1918824
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. “Chapter 10: The Inversion Distance Problem”. Mathematics of Evolution and Phylogeny. Ed. Olivier Gascuel. Oxford University Press, 2005. 262-290.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1603220
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. “On Sorting by Translocations”. Proc. of RECOMB 2005. SPRINGER-VERLAG BERLIN, 2005.Vol. 3500. LNBI. 615-629.
PUB | DOI | WoS
 
2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1775168 OA
Krause, Antje, Stoye, Jens, and Vingron, Martin. “Large scale hierarchical clustering of protein sequences”. BMC Bioinformatics 6.1 (2005): 15.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773302 OA
Bartels, Daniela, Kespohl, Sebastian, Albaum, Stefan, Drüke, Tanja, Goesmann, Alexander, Herold, Julia, Kaiser, Olaf, Pühler, Alfred, Pfeiffer, Friedhelm, Raddatz, Günter, Stoye, Jens, Meyer, Folker, and Schuster, Stephan C. “BACCardI - a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison”. Bioinformatics 21.7 (2005): 853-859.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1602793
Böcker, S, and Kaltenbach, HM. “Mass spectra alignments and their significance”. COMBINATORIAL PATTERN MATCHING, PROCEEDINGS. SPRINGER-VERLAG BERLIN, 2005.Vol. 3537. 429-441.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1918947
Böcker, Sebastian, and Stoye, Jens. “Informatische Methoden zur Protein-Identifikation”. LaborPraxis 29.10 (2005): 24-26.
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2005 | Bielefelder E-Dissertation | PUB-ID: 2301827 OA
Sammeth, Michael. Integrated multiple sequence alignment. Bielefeld (Germany): Bielefeld University, 2005.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1601348
Bannert, Constantin, and Stoye, Jens. “Protein Annotation by Secondary Structure Based Alignments (PASSTA)”. Proc. of CompLife 2005. Springer-Verlag, 2005.Vol. 3695. LNBI. 79-90.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1601361
Sammeth, Michael, Weniger, Thomas, Harmsen, Dag, and Stoye, Jens. “Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI)”. Proc. of WABI 2005. SPRINGER-VERLAG BERLIN, 2005.Vol. 3692. LNBI. 276-290.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1603216
Rasmussen, Kim R., Stoye, Jens, and Myers, Eugene W. “Efficient q-Gram Filters for Finding All ε-Matches Over a Given Length”. Proc. of RECOMB 2005. SPRINGER-VERLAG BERLIN, 2005.Vol. 3500. LNBI. 189-203.
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2005 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919026
Schürmann, Klaus-Bernd, and Stoye, Jens. “Counting Suffix Arrays and Strings”. Proc. of SPIRE 2005. 2005.Vol. 3772. LNCS. 55-66.
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2005 | Report | PUB-ID: 1970472 OA
Schürmann, Klaus-Bernd, and Stoye, Jens. Counting Suffix Arrays and Strings. Bielefeld: Technische Fakultät der Universität Bielefeld, 2005. Forschungsberichte.
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2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2309420
Zimmermann, J., Lipták, Zs., and Hazelhurst, S. “A Method for Evaluating the Quality of String Dissimilarity Measures and Clustering Algorithms for EST Clustering.”. Proc. BIBE. 2004. 301-309.
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2004 | Konferenzband | Veröffentlicht | PUB-ID: 1918823
Robert Giegerich and Jens Stoye, eds. “Proceedings of the German Conference on Bioinformatics, GCB 2004”. Lecture Notes in Informatics P-53 (2004).
PUB
 
2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1606286
Michael, Morris, Dieterich, Christoph, and Stoye, Jens. “Suboptimal Local Alignments across Multiple Scoring Schemes”. Proc. of WABI 2004. SPRINGER-VERLAG BERLIN, 2004.Vol. 3240. LNBI. 99-110.
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2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1607260
Schmidt, Thomas, and Stoye, Jens. “Quadratic Time Algorithms for Finding Common Intervals in Two and More Sequences”. Proc. of CPM 2004. 2004.Vol. 3109. LNCS. 347-358.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773554 OA
Pollard, Daniel A., Bergman, Casey M., Stoye, Jens, Celniker, Susan E., and Eisen, Michael B. “Correction: Benchmarking tools for the alignment of functional noncoding DNA”. BMC Bioinformatics 5.1 (2004): 73.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773560 OA
Cieliebak, Mark, Erlebach, Thomas, Lipták, Zsuzsanna, Stoye, Jens, and Welzl, Emo. “Algorithmic complexity of protein identification: combinatorics of weighted strings”. Discrete Applied Mathematics 137.1 (2004): 27-46.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773312 OA
Pollard, Daniel A., Bergman, Casey M., Stoye, Jens, Celniker, Susan E., and Eisen, Michael B. “Benchmarking tools for the alignment of functional noncoding DNA”. BMC Bioinformatics 5.1 (2004): 6.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773569 OA
Gusfield, Dan, and Stoye, Jens. “Linear time algorithms for finding and representing all the tandem repeats in a string”. Journal of computer and system sciences 69.4 (2004): 525-546.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773761 OA
Müller, Tobias, Rahmann, Sven, Dandekar, Thomas, and Wolf, Matthias. “Accurate and robust phylogeny estimation based on profile distances: a study of the Chlorophyceae (Chlorophyta)”. BMC Evolutionary Biology 4.1 (2004): 20.
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2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1607263
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. “Reversal Distance without Hurdles and Fortresses”. Proc. of CPM 2004. SPRINGER-VERLAG BERLIN, 2004.Vol. 3109. LNCS. 388-399.
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2003 | Report | PUB-ID: 1970475 OA
Schürmann, Klaus-Bernd, and Stoye, Jens. Suffix Tree Construction and Storage with Limited Main Memory. Bielefeld: Technische Fakultät der Universität Bielefeld, 2003. Forschungsberichte.
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1612664
Heber, Steffen, and Stoye, Jens. “The European Conference on Computational Biology”. Drug Discovery Today 8.3 (2003): 113-114.
PUB | DOI | WoS | PubMed | Europe PMC
 
2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1918949
Giegerich, Robert, and Stoye, Jens. “Finden, fast ohne zu suchen: Indexstrukturen in der Bioinformatik”. Forschung an der Universität Bielefeld 26 (2003): 63-68.
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2003 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919005
Bannert, Constantin, and Stoye, Jens. “Evaluation of the Jumping Alignment Algorithm with Artificial and Biological Data”. Proc. of GCB 2003. 2003. 21-25.
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1610397 OA
Giegerich, Robert, Kurtz, Stefan, and Stoye, Jens. “Efficient implementation of lazy suffix trees”. SOFTWARE-PRACTICE & EXPERIENCE 33.11 (2003): 1035-1049.
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1609403 OA
Sammeth, Michael, Morgenstern, Burkhard, and Stoye, Jens. “Divide-and-conquer multiple alignment with segment-based constraints”. BIOINFORMATICS 19.Suppl 2 (2003): ii189-ii195.
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2003 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1610433
Bergeron, Anne, and Stoye, Jens. “On the similarity of sets of permutations and its applications to genome comparison”. Proc. of COCOON 2003. 2003.Vol. 2697. LNCS. 68-79.
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1610503 OA
Sammeth, Michael, Rothgänger, Jörg, Esser, Wolfram, Albert, Jürgen, Stoye, Jens, and Harmsen, Dag. “QAlign: quality-based multiple alignments with dynamic phylogenetic analysis”. BIOINFORMATICS 19.12 (2003): 1592-1593.
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2003 | Report | PUB-ID: 1970477 OA
Bergeron, Anne, and Stoye, Jens. On the Similarity of Sets of Permutations and its Applications to Genome Comparison. Bielefeld: Technische Fakultät der Universität Bielefeld, 2003. Forschungsberichte.
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