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419 Publikationen

2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919211
Hufsky, F., Kuchenbecker, L., Jahn, K., Stoye, J., & Böcker, S. (2010). Swiftly Computing Center Strings. Proc. of WABI 2010, 6293, 325-336. doi:10.1007/978-3-642-15294-8_27
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919216
Kovac, J., Dias Vieira Braga, M., & Stoye, J. (2010). The Problem of Chromosome Reincorporation in DCJ Sorting and Halving. Proc. of Recomb-CG 2010, LNBI, 6398, 13-24. doi:10.1007/978-3-642-16181-0_2
PUB | DOI
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1794419
Herold, J., Zhou, L., Abouna, S., Pelengaris, S., Epstein, D., Khan, M., & Nattkemper, T. W. (2010). Integrating semantic annotation and information visualization for the analysis of multichannel fluorescence micrographs from pancreatic tissue. Computerized Medical Imaging and Graphics, 34(6), 446-452. doi:10.1016/j.compmedimag.2009.10.004
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1898025
Dias Vieira Braga, M., & Stoye, J. (2010). The Solution Space of Sorting by DCJ. Journal of Computational Biology, 17(9), 1145-1165. doi:10.1089/cmb.2010.0109
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919215
Dias Vieira Braga, M., Willing, E., & Stoye, J. (2010). Genomic Distance with DCJ and Indels. Proc. of WABI 2010, LNBI, 6293, 90-101. doi:10.1007/978-3-642-15294-8_8
PUB | DOI
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1929860
Schwientek, P., Ellinghaus, P., Steppan, S., D'Urso, D., Seewald, M., Kassner, A., Cebulla, R., et al. (2010). Global gene expression analysis in nonfailing and failing myocardium pre- and postpulsatile and nonpulsatile ventricular assist device support. PHYSIOLOGICAL GENOMICS, 42(3), 397-405. doi:10.1152/physiolgenomics.00030.2010
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1930110
Joseph, B., Schneiker-Bekel, S., Schramm-Glueck, A., Blom, J., Claus, H., Linke, B., Schwarz, R. F., et al. (2010). Comparative Genome Biology of a Serogroup B Carriage and Disease Strain Supports a Polygenic Nature of Meningococcal Virulence. JOURNAL OF BACTERIOLOGY, 192(20), 5363-5377. doi:10.1128/JB.00883-10
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589663
Bergeron, A., Mixtacki, J., & Stoye, J. (2009). A New Linear Time Algorithm to Compute the Genomic Distance via the Double Cut and Join Distance. Theoretical Computer Science, 410(51), 5300-5316. doi:10.1016/j.tcs.2009.09.008
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427059
Escoffier, B., Milanič, M., & Paschos, V. T. (2009). Simple and fast reoptimizations for the Steiner tree problem. Algorithmic Operations Research, 4(2), 86-94.
PUB
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2308924
Cicalese, F., & Milanic, M. (2009). Competitive evaluation of threshold functions in the priced information model. Annals of Operations Research, 188(1), 111-132. doi:10.1007/s10479-009-0622-4
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2426437
Bunkowski, A., Bödeker, B., Bader, S., Westhoff, M., Litterst, P., & Baumbach, J. I. (2009). MCC/IMS signals in human breath related to sarcoidosis-results of a feasibility study using an automated peak finding procedure. Journal of Breath Research, 3(4), 046001. doi:10.1088/1752-7155/3/4/046001
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2426487
Böcker, S., Lipták, Z., Pervukhin, A., & Letzel, M. C. (2009). SIRIUS: decomposing isotope patterns for metabolite identification. Bioinformatics, 25(2), 218-224. doi:10.1093/bioinformatics/btn603
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Preprint | Veröffentlicht | PUB-ID: 2426653
Cicalese, F., Jacobs, T., Laber, E. S., & Molinaro, M. (2009). On the Complexity of Searching in Trees: Average-case Minimization
PUB | arXiv
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2426660
Cicalese, F., Manne, F., & Xin, Q. (2009). Faster Deterministic Communication in Radio Networks. Algorithmica, 54(2), 226-242. doi:10.1007/s00453-007-9136-0
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427118
Engelmann, J. A., Rahmann, S., Wolf, M., Schultz, J., Fritzilas, E., Kneitz, S., Dandekar, T., et al. (2009). Modeling cross-hybridization on phylogenetic DNA microarrays increases the detection power of closely related species. Molecular Ecology Resources, 9(1), 83-93. doi:10.1111/j.1755-0998.2008.02199.x
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Bielefelder E-Dissertation | PUB-ID: 2305073 OA
Oehm, S. (2009). Comparing organisms on the level of metabolism. Bielefeld (Germany): Bielefeld University.
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2009 | Bielefelder E-Dissertation | PUB-ID: 2301318 OA
Neuweger, H. (2009). MeltDB : a software platform for the analysis and integration of metabolomics experiment data. Bielefeld (Germany): Bielefeld University.
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2009 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2659405
Feijão, P., & Meidanis, J. (2009). SCJ: A Variant of Breakpoint Distance for Which Sorting, Genome Median and Genome Halving Problems Are Easy. In S. L. Salzberg & T. Warnow (Eds.), Lecture Notes in Computer Science: Vol. 5724. Algorithms in Bioinformatics (pp. 85-96). doi:10.1007/978-3-642-04241-6_8
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427161
Kamiński, M., Lozin, V. V., & Milanič, M. (2009). Recent developments on graphs of bounded clique-width. Discrete Appl. Math., 157(12), 2747-2761. doi:10.1016/j.dam.2008.08.022
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427173
Kamiński, M., Medvedev, P., & Milanič, M. (2009). On the plane-width of graphs. Electronic Notes in Discrete Mathematics, 34, 633-637. doi:10.1016/j.endm.2009.07.107
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2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919206
Dias Vieira Braga, M., & Stoye, J. (2009). Counting All DCJ Sorting Scenarios. Proc. of Recomb-CG 2009, LNBI, 5817, 36-47. doi:10.1007/978-3-642-04744-2_4
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2426605
Cicalese, F., Fici, G., & Lipták, Z. (2009). Searching for Jumbled Patterns in Strings. Proc. of the Prague Stringology Conference 2009, 105-117
PUB
 
2009 | Bielefelder E-Dissertation | PUB-ID: 2303240 OA
Gagie, T. (2009). New algorithms and lower bounds for sequential-access data compression. Bielefeld (Germany): Bielefeld University.
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2009 | Bielefelder E-Dissertation | PUB-ID: 2302608 OA
Herms, I. (2009). Probabilistic arithmetic automata : applications of a stochastic computational framework in biological sequence analysis. Bielefeld (Germany): Bielefeld University.
PUB | PDF
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2406118
Välimäki, N., Mäkinen, V., Gerlach, W., & Dixit, K. (2009). Engineering a compressed suffix tree implementation. Journal of Experimental Algorithmics (JEA), 14, 4.2-2:4.23. doi:10.1145/1498698.1594228
PUB | DOI
 
2009 | Bielefelder E-Dissertation | PUB-ID: 2304745 OA
Fritzilas, E. (2009). Combinatorial aspects of low-rank matrix factorization and two applications in bioinformatics. Bielefeld (Germany): Bielefeld University.
PUB | PDF
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919207
Blin, G., & Stoye, J. (2009). Finding Nested Common Intervals Efficiently. Proc. of Recomb-CG 2009, 5817, 59-69. doi:10.1007/978-3-642-04744-2_6
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018390
Herold, J., Abouna, S., Zhou, L., Pelengaris, S., Epstein, D. B. A., Khan, M., & Nattkemper, T. W. (2009). A way towards analyzing high-content bioimage data by means of semantic annotation and visual data mining. SPIE Medical Imaging. doi:10.1117/12.811710
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018422
Ontrup, J., Ehnert, N., Bergmann, M., & Nattkemper, T. W. (2009). BIIGLE - Web 2.0 enabled labelling and exploring of images from the Arctic deep-sea observatory HAUSGARTEN. OCEANS 2009 - Europe Bremen. doi:10.1109/oceanse.2009.5278332
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2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018427
Qureshi, H., Rajpoot, N., Nattkemper, T. W., & Hans, V. (2009). A Robust Adaptive Wavelet-based Method for Classification of Meningioma Histology Images. MICCAI«2009 Workshop on Optical Tissue Image Analysis in Microscopy, Histology, and Endoscopy
PUB
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783187 OA
Blom, J., Albaum, S., Doppmeier, D., Pühler, A., Vorhölter, F. - J., Zakrzewski, M., & Goesmann, A. (2009). EDGAR: a software framework for the comparative analysis of prokaryotic genomes. BMC Bioinformatics, 10(1), 154. doi:10.1186/1471-2105-10-154
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1636062
Ontrup, J., Ritter, H., Scholz, S., & Wagner, R. (2009). Detecting, Assessing, and Monitoring Relevant Topics in Virtual Information Environments. IEEE Transactions on Knowledge and Data Engineering, 21(3), 415-427. doi:10.1109/TKDE.2008.149
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1898137
Jahn, K., & Stoye, J. (2009). Approximative Gencluster und ihre Anwendung in der komparativen Genomik. Informatik-Spektrum, 32(4), 288-300. doi:10.1007/s00287-009-0350-9
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1893884
Husemann, P., & Stoye, J. (2009). Phylogenetic Comparative Assembly. Proc. of WABI 2009, LNBI, 5724, 145-156. doi:10.1007/978-3-642-04241-6_13
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1635314 OA
Diaz, N. N., Krause, L., Goesmann, A., Niehaus, K., & Nattkemper, T. W. (2009). TACOA - Taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach. BMC Bioinformatics, 10(1), 56. doi:10.1186/1471-2105-10-56
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1635321 OA
Dondrup, M., Albaum, S., Griebel, T., Henckel, K., Jünemann, S., Kahlke, T., Kleindt, C. K., et al. (2009). EMMA 2-A MAGE-compliant system for the collaborative analysis and integration of microarray data. BMC Bioinformatics, 10(1), 50. doi:10.1186/1471-2105-10-50
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1591507
Stoye, J., & Wittler, R. (2009). A Unified Approach for Reconstructing Ancient Gene Clusters. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 6(3), 387-400. doi:10.1109/TCBB.2008.135
PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589098 OA
Gerlach, W., Jünemann, S., Tille, F., Goesmann, A., & Stoye, J. (2009). WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads. BMC Bioinformatics, 10(1), 430. doi:10.1186/1471-2105-10-430
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589531
Albaum, S., Neuweger, H., Fraenzel, B., Lange, S., Mertens, D., Troetschel, C., Wolters, D., et al. (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. doi:10.1093/bioinformatics/btp568
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1590204
Brudno, M., Medvedev, P., Stoye, J., & De La Vega, F. M. (2009). A report on the 2009 SIG on short read sequencing and algorithms (Short-SIG). BIOINFORMATICS, 25(21), 2863-2864. doi:10.1093/bioinformatics/btp525
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588783
Purser, A., Bergmann, M., Ontrup, J., & Nattkemper, T. W. (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. doi:10.3354/meps08154
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1898105
Böcker, S., Jahn, K., Mixtacki, J., & Stoye, J. (2009). Computation of Median Gene Clusters. Journal of Computational Biology, 16(8), 1085-1099. doi:10.1089/cmb.2009.0098
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1591319
Hoffmann, N., & Stoye, J. (2009). ChromA: signal-based retention time alignment for chromatography-mass spectrometry data. Bioinformatics, 25(16), 2080-2081. doi:10.1093/bioinformatics/btp343
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588760 OA
Dias Vieira Braga, M., Gautier, C., & Sagot, M. - F. (2009). An asymmetric approach to preserve common intervals while sorting by reversals. Algorithms for Molecular Biology, 4(1), 16. doi:10.1186/1748-7188-4-16
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919209
Medvedev, P., & Stoye, J. (2009). Rearrangement Models and Single-Cut Operations. Comparative Genomics : International Workshop, RECOMB-CG 2009, Budapest, Hungary, September 27-29, 2009. Proceedings, 5817, 84-97. doi:10.1007/978-3-642-04744-2_8
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018440
Schoening, T., Ehnert, N., Ontrup, J., & Nattkemper, T. W. (2009). BIIGLE Tools - A Web 2.0 Approach for Visual Bioimage Database Mining. IV 09 - Intl. Conference on Information Visualization. doi:10.1109/iv.2009.71
PUB | DOI
 
2009 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1918945
Stoye, J. (2009). Computational Short Read Metagenomics. Presented at the JOBIM 2009, Nantes, France
PUB
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1634447
Bekel, T., Henckel, K., Küster, H., Meyer, F., Mittard-Runte, V., Neuweger, H., Paarmann, D., 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. doi:10.1016/j.jbiotec.2009.01.006
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1634615
Zeschnigk, M., Martin, M., Betzl, G., Kalbe, A., Sirsch, C., Buiting, K., Gross, S., 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. doi:10.1093/hmg/ddp054
PUB | DOI | WoS | PubMed | Europe PMC
 
2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2427252
Alekseev, V. E., Lozin, V. V., Malyshev, D., & Milanič, M. (2008). The Maximum Independent Set Problem in Planar Graphs. Proc. MFCS 2008, 96-107. doi:10.1007/978-3-540-85238-4_7
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