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421 Publikationen

2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589531
Albaum, Stefan, Neuweger, Heiko, Fraenzel, Benjamin, Lange, Sita, Mertens, Dominik, Troetschel, Christian, Wolters, Dirk, Kalinowski, Jörn, Nattkemper, Tim Wilhelm, and Goesmann, Alexander. 2009. “Qupe-a Rich Internet Application to take a step forward in the analysis of mass spectrometry-based quantitative proteomics experiments”. Bioinformatics 25 (23): 3128-3134.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1590204
Brudno, Michael, Medvedev, Paul, Stoye, Jens, and De La Vega, Francisco M. 2009. “A report on the 2009 SIG on short read sequencing and algorithms (Short-SIG)”. BIOINFORMATICS 25 (21): 2863-2864.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588783
Purser, Autun, Bergmann, Melanie, Ontrup, Jörg, and Nattkemper, Tim Wilhelm. 2009. “Use of machine-learning algorithms for the automated detection of cold-water coral habitats: a pilot study”. Marine Ecology Progress Series 397: 241-251.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1898105
Böcker, Sebastian, Jahn, Katharina, Mixtacki, Julia, and Stoye, Jens. 2009. “Computation of Median Gene Clusters”. Journal of Computational Biology 16 (8): 1085-1099.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1591319
Hoffmann, Nils, and Stoye, Jens. 2009. “ChromA: signal-based retention time alignment for chromatography-mass spectrometry data”. Bioinformatics 25 (16): 2080-2081.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588760 OA
Dias Vieira Braga, Marília, Gautier, Christian, and Sagot, Marie-France. 2009. “An asymmetric approach to preserve common intervals while sorting by reversals”. Algorithms for Molecular Biology 4 (1): 16.
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2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919209
Medvedev, Paul, and Stoye, Jens. 2009. “Rearrangement Models and Single-Cut Operations”. In Comparative Genomics : International Workshop, RECOMB-CG 2009, Budapest, Hungary, September 27-29, 2009. Proceedings, 5817:84-97. Lecture Notes in Computer Science. Berlin, Heidelberg: Springer.
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2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018440
Schoening, Timm, Ehnert, Nils, Ontrup, Jörg, and Nattkemper, Tim Wilhelm. 2009. “BIIGLE Tools - A Web 2.0 Approach for Visual Bioimage Database Mining”. In IV 09 - Intl. Conference on Information Visualization. IEEE.
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2009 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1918945
Stoye, Jens. 2009. “Computational Short Read Metagenomics”. Presented at the JOBIM 2009, Nantes, France , 3-4.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1634447
Bekel, Thomas, Henckel, Kolja, Küster, Helge, Meyer, Folker, Mittard-Runte, Virginie, Neuweger, Heiko, Paarmann, Daniel, et al. 2009. “The Sequence Analysis and Management System - SAMS-2.0: Data management and sequence analysis adapted to changing requirements from traditional sanger sequencing to ultrafast sequencing technologies”. Journal of Biotechnology 140 (1-2): 3-12.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1634615
Zeschnigk, Michael, Martin, Marcel, Betzl, Gisela, Kalbe, Andreas, Sirsch, Caroline, Buiting, Karin, Gross, Stephanie, et al. 2009. “Massive parallel bisulfite sequencing of CG-rich DNA fragments reveals that methylation of many X-chromosomal CpG islands in female blood DNA is incomplete”. HUMAN MOLECULAR GENETICS 18 (8): 1439-1448.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2427252
Alekseev, Vladimir E., Lozin, Vadim V., Malyshev, Dimitry, and Milanič, Martin. 2008. “The Maximum Independent Set Problem in Planar Graphs”. In Proc. MFCS 2008, 96-107. Berlin, Heidelberg: Springer Berlin Heidelberg.
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2008 | Bielefelder E-Dissertation | PUB-ID: 2306324 OA
Baumbach, Jan. 2008. CoryneRegNet : a reference database and analysis platform for corynebacterial gene regulatory networks. Bielefeld (Germany): Bielefeld University.
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2008 | Bielefelder E-Dissertation | PUB-ID: 2302950 OA
Zakotnik, Julia. 2008. The double cut and join operation and its applications to genome rearrangements. Bielefeld (Germany): Bielefeld University.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2659345
Oliveira, Marcos Túlio, Barau, Joan Grande, Junqueira, Ana Carolina Martins, Feijão, Pedro, Rosa, Aline Coelho da, Abreu, Cristina Feix, Azeredo-Espin, Ana Maria L., and Lessinger, Ana Cláudia. 2008. “Structure and evolution of the mitochondrial genomes of Haematobia irritans and Stomoxys calcitrans: The Muscidae (Diptera: Calyptratae) perspective”. Molecular Phylogenetics and Evolution 48 (3): 850-857.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2308903
Cicalese, F., and Laber, E. S. 2008. “Function Evaluation Via Linear Programming in the Priced Information Model”. In Proc. ICALP 2008, 173-185. Berlin, Heidelberg: Springer Berlin Heidelberg.
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2008 | Report | Veröffentlicht | PUB-ID: 2308927 OA
Cicalese, Ferdinando, and Milanivc, Martin. 2008. On Parsimony Haplotyping. Forschungsberichte der Technischen Fakultät, Abteilung Informationstechnik / Universität Bielefeld. Bielefeld: Universität Bielefeld, Technische Fakultät.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2308974
Fritzilas, Epameinondas, Rios-Solis, Yasmin A., and Rahmann, Sven. 2008. “Structural Identifiability in Low-Rank Matrix Factorization”. In Computing and Combinatorics 14th Annual International Conference, COCOON 2008 Dalian, China, June 27-29, 2008 Proceedings, ed. Xiaodong Hu and Jie Wang, 140-148. Lecture Notes in Computer Science, 5092. Berlin u.a.: Springer.
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2008 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2499103
Milanivc, M., and Monnot, J. 2008. “The Complexity of the Exact Weighted Independent Set Problem”. In Combinatorial optimization and theoretical computer science: interfaces and perspectives : 30th anniversary of the LAMSADE, 393-432. London, UK: ISTE.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499108
Mixtacki, Julia. 2008. “Genome Halving under DCJ Revisited”. In Computing and Combinatorics. 14th Annual International Conference, COCOON 2008 Dalian, China, June 27-29, 2008 Proceedings, ed. Xiaodong Hu and Jie Wang, 276-286. Lecture Notes in Computer Science, 5092.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919198
Quitzau, José Augusto Amgarten, and Stoye, Jens. 2008. “Detecting Repeat Families in Incompletely Sequenced Genomes”. In Proc. of WABI 2008, 5251:342-353. LNBI.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2498846
Boyar, Joan, and Medvedev, Paul. 2008. “The relative worst order ratio applied to seat reservation”. ACM Transactions on Algorithms 4 (4): 1-22.
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2008 | Report | Veröffentlicht | PUB-ID: 2499065
Cicalese, F., and Milanic, M. 2008. Computing with Priced Information: game trees and the value dependent cost model. Technische Fakultät, Universität Bielefeld.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2499072
Herms, Inke, and Rahmann, Sven. 2008. “Computing Alignment Seed Sensitivity with Probabilistic Arithmetic Automata”. In Algorithms in Bioinformatics: 8th International Workshop, WABI 2008, Karlsruhe, Germany, September 15-19, 2008. Proceedings, ed. Keith A. Crandall and Jens Lagergren, 318-329. Lecture Notes in Computer Science, 5251. Berlin u.a.: Springer.
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2008 | Report | Veröffentlicht | PUB-ID: 2308930 OA
Cicalese, Ferdinando, and Milanivc, Martin. 2008. Computing with Priced Information: game trees and the value dependent cost model. Forschungsberichte der Technischen Fakultät, Abteilung Informationstechnik / Universität Bielefeld. Bielefeld: Universität Bielefeld, Technische Fakultät.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499098
Lozin, V. V., and Milanic, M. 2008. “A polynomial algorithm to find an independent set of maximum weight in a fork-free graph”. J. Discr. Alg. 6 (4): 595-604.
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2008 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2499120
Rahmann, Sven, and Klau, Gunnar W. 2008. “Integer Linear Programming Techniques for Discovering Approximate Gene Clusters”. In Bioinformatics Algorithms: Techniques and Applications, ed. Ion I. Mǎndoiu and Alexander Zelikovsky, 203-222. Hoboken, NJ, USA: Wiley Interscience.
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2008 | Report | PUB-ID: 1970459 OA
Quitzau, José Augusto Amgarten, and Stoye, Jens. 2008. A space efficient representation for sparse de Bruijn subgraphs. Forschungsberichte der Technischen Fakultät, Abteilung Informationstechnik / Universität Bielefeld. Bielefeld: Technische Fakultät der Universität Bielefeld.
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2008 | Report | PUB-ID: 1970461 OA
Ejaz, Tahir, Rahmann, Sven, and Stoye, Jens. 2008. Online Abelian Pattern Matching. Forschungsberichte der Technischen Fakultät, Abteilung Informationstechnik / Universität Bielefeld. Bielefeld: Technische Fakultät der Universität Bielefeld.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1636699
Neuweger, Heiko, Albaum, Stefan, Dondrup, Michael, Persicke, Marcus, Watt, Tony, Niehaus, Karsten, Stoye, Jens, and Goesmann, Alexander. 2008. “MeltDB: a software platform for the analysis and integration of metabolomics experiment data”. Bioinformatics 24 (23): 2726-2732.
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2008 | Bielefelder E-Dissertation | PUB-ID: 2305571 OA
Bannert, Constantin. 2008. Flexible protein annotation with sequence- and secondary structure information. Bielefeld (Germany): Bielefeld University.
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2008 | Lexikoneintrag | Veröffentlicht | PUB-ID: 1918834
Stoye, Jens. 2008. “Suffix Tree Construction in RAM (1997; Farach-Colton)”. In Encyclopedia of Algorithms, ed. Ming-Yang Kao, 925-928. Springer Verlag.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919192
Böcker, Sebastian, Jahn, Katharina, Mixtacki, Julia, and Stoye, Jens. 2008. “Computation of Median Gene Clusters”. In Proc. of RECOMB 2008, 4955:331-345. LNBI.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919200
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. 2008. “On Computing the Breakpoint Reuse Rate in Rearrangement Scenarios”. In Proc. of Recomb-CG 2008, 5267:226-240. LNBI.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018405
Loyek, Christian, Woermann, Friedrich G., and Nattkemper, Tim Wilhelm. 2008. “Detection of Focal Cortical Dysplasia in MRI Using Textural Features”. In Proceedings of BVM 2008, 432-436. Berlin, Heidelberg: Springer Verlag.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1636280 OA
Timm, Wiebke, Scherbart, Alexandra, Boecker, Sebastian, Kohlbacher, Oliver, and Nattkemper, Tim Wilhelm. 2008. “Peak intensity prediction in MALDI-TOF mass spectrometry: A machine learning study to support quantitative proteomics”. BMC Bioinformatics 9 (1): 443.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1592257
Schoen, Christoph, Blom, Jochen, Claus, Heike, Schramm-Glueck, Anja, Brandt, Petra, Mueller, Tobias, Goesmann, Alexander, et al. 2008. “Whole-genome comparison of disease and carriage strains provides insights into virulence evolution in Neisseria meningitidis”. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 105 (9): 3473-3478.
PUB | DOI | WoS | PubMed | Europe PMC | GenBank
 
2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1587304
Hazelhurst, Scott, Hide, Winston, Lipták, Zsuzsanna, Nogueira, Ramon, and Starfield, Richard. 2008. “An overview of the wcd EST clustering tool”. BIOINFORMATICS 24 (13): 1542-1546.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1592737
Boecker, Sebastian, Lipták, Zsuzsanna, Martin, Marcel, Pervukhin, Anton, and Sudek, Henner. 2008. “DECOMP - from interpreting mass spectrometry peaks to solving the money changing problem”. BIOINFORMATICS 24 (4): 591-593.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1587078
Schürmann, Klaus-Bernd, and Stoye, Jens. 2008. “Counting suffix arrays and strings”. THEORETICAL COMPUTER SCIENCE 395 (2-3): 220-234.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1587052
Martin, Christian, Diaz, Naryttza N., Ontrup, Jörg, and Nattkemper, Tim Wilhelm. 2008. “Hyperbolic SOM-based clustering of DNA fragment features for taxonomic visualization and classification”. Bioinformatics 24 (14): 1568-1574.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1586009
Krause, Lutz, Diaz, Naryttza N., Edwards, Robert A., Gartemann, Karl-Heinz, Krömeke, Holger, Neuweger, Heiko, Pühler, Alfred, et al. 2008. “Taxonomic composition and gene content of a methane-producing microbial community isolated from a biogas reactor”. JOURNAL OF BIOTECHNOLOGY 136 (1-2): 91-101.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1586785 OA
Oehm, Sebastian, Gilbert, David, Tauch, Andreas, Stoye, Jens, and Goesmann, Alexander. 2008. “Comparative Pathway Analyzer - a web server for comparative analysis, clustering and visualization of metabolic networks in multiple organisms”. NUCLEIC ACIDS RESEARCH 36 (Web Server): W433-W437.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1585939
Tauch, Andreas, Schneider, Jessica, Szczepanowski, Rafael, Tilker, Alexandra, Viehöver, Prisca, Gartemann, Karl-Heinz, Arnold, Walter, et al. 2008. “Ultrafast pyrosequencing of Corynebacterium kroppenstedtii DSM44385 revealed insights into the physiology of a lipophilic corynebacterium that lacks mycolic acids”. Journal of Biotechnology 136 (1-2): 22-30.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783364 OA
Krause, Lutz, Diaz, Naryttza N., Goesmann, Alexander, Kelley, Scott, Nattkemper, Tim Wilhelm, Rohwer, Forest, Edwards, Robert A., and Stoye, Jens. 2008. “Phylogenetic classification of short environmental DNA fragments”. Nucleic Acids Research 36 (7): 2230-2239.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919195
Bergeron, Anne, Mixtacki, Julia, and Stoye, Jens. 2008. “HP Distance via Double Cut and Join Distance”. In Combinatorial Pattern Matching. 19th Annual Symposium, CPM 2008, Pisa, Italy, June 18-20, 2008 Proceedings, 56-68. Lecture Notes in Computer Science, 5029.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018409
Martin, Christian, and Nattkemper, Tim Wilhelm. 2008. “A Tree Index to Support Clustering Based Exploratory Data Analysis”. In Bioinformatics Research and Development : Second International Conference, BIRD 2008 Vienna, Austria, July 7-9, 2008 Proceedings, 13:1-15. Communications in Computer and Information Science. Berlin, Heidelberg: Springer.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018435
Scherbart, Alexandra, Timm, Wiebke, Böcker, Sebastian, and Nattkemper, Tim Wilhelm. 2008. “Improved Mass Spectrometry Peak Intensity Prediction by Adaptive Feature Weighting”. In International Conference on Neural Information Processing. Auckland, New Zealand.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018381
Albaum, Stefan, Neuweger, Heiko, Lange, Sita, Mertens, Dominik, Runte, Kai, Kalinowski, Jörn, Nattkemper, Tim Wilhelm, and Goesmann, Alexander. 2008. “ProSE - "Software as a Service" for Quantitative Proteomics (Poster abstract)”. In HUPO 7th Annual World Congress.
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2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018398
Herold, Julia, Friedenberger, Manuela, Bode, Marcus, Rajpoot, Nasir, Schubert, Walter, and Nattkemper, Tim Wilhelm. 2008. “Flexible Synapse Detection in Fluorescence Micrographs by Modeling Human Expert Grading”. In Proc. of 2008 IEEE International Symposium on Biomedical Imaging.
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