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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.
In: Proc. of WABI 2010. LNBI, 6293. 325-336.
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.
In: Proc. of Recomb-CG 2010. LNBI, 6398. 13-24.
PUB | DOI
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1794419
Herold J, Zhou L, Abouna S, Pelengaris S, Epstein D, Khan M, Nattkemper TW (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.
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.
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.
In: Proc. of WABI 2010. LNBI, 6293. 90-101.
PUB | DOI
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1929860
Schwientek P, Ellinghaus P, Steppan S, D'Urso D, Seewald M, Kassner A, Cebulla R, Schulte-Eistrup S, Morshuis M, Roefe D, El Banayosy A, Koerfer R, Milting H (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.
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 RF, Becker A, Goesmann A, Frosch M, Schoen C (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.
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.
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427059
Escoffier B, Milanič M, Paschos VT (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.
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2426437
Bunkowski A, Bödeker B, Bader S, Westhoff M, Litterst P, Baumbach JI (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.
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2426487
Böcker S, Lipták Z, Pervukhin A, Letzel MC (2009)
SIRIUS: decomposing isotope patterns for metabolite identification.
Bioinformatics 25(2): 218-224.
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Preprint | Veröffentlicht | PUB-ID: 2426653
Cicalese F, Jacobs T, Laber ES, 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.
PUB | DOI | WoS
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427118
Engelmann JA, Rahmann S, Wolf M, Schultz J, Fritzilas E, Kneitz S, Dandekar T, Müller T (2009)
Modeling cross-hybridization on phylogenetic DNA microarrays increases the detection power of closely related species.
Molecular Ecology Resources 9(1): 83-93.
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.
PUB | PDF
 
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.
PUB | PDF
 
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: Algorithms in Bioinformatics. Salzberg SL, Warnow T (Eds); Lecture Notes in Computer Science, 5724. 85-96.
PUB | DOI
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427161
Kamiński M, Lozin VV, Milanič M (2009)
Recent developments on graphs of bounded clique-width.
Discrete Appl. Math. 157(12): 2747-2761.
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.
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919206
Dias Vieira Braga M, Stoye J (2009)
Counting All DCJ Sorting Scenarios.
In: Proc. of Recomb-CG 2009. LNBI, 5817. 36-47.
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2426605
Cicalese F, Fici G, Lipták Z (2009)
Searching for Jumbled Patterns in Strings.
In: 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.
PUB | PDF
 
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.
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.
In: Proc. of Recomb-CG 2009. LNBI, 5817. 59-69.
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018390
Herold J, Abouna S, Zhou L, Pelengaris S, Epstein DBA, Khan M, Nattkemper TW (2009)
A way towards analyzing high-content bioimage data by means of semantic annotation and visual data mining.
In: SPIE Medical Imaging. .
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018422
Ontrup J, Ehnert N, Bergmann M, Nattkemper TW (2009)
BIIGLE - Web 2.0 enabled labelling and exploring of images from the Arctic deep-sea observatory HAUSGARTEN.
In: OCEANS 2009 - Europe. Bremen.
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018427
Qureshi H, Rajpoot N, Nattkemper TW, Hans V (2009)
A Robust Adaptive Wavelet-based Method for Classification of Meningioma Histology Images.
In: 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.
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.
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.
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1893884
Husemann P, Stoye J (2009)
Phylogenetic Comparative Assembly.
In: Proc. of WABI 2009. LNBI, 5724. 145-156.
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1635314 OA
Diaz NN, Krause L, Goesmann A, Niehaus K, Nattkemper TW (2009)
TACOA - Taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach.
BMC Bioinformatics 10(1): 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 CK, Kuester H, Linke B, Mertens D, Mittard-Runte V, Neuweger H, Runte KJ, Tauch A, Tille F, Pühler A, Goesmann A (2009)
EMMA 2-A MAGE-compliant system for the collaborative analysis and integration of microarray data.
BMC Bioinformatics 10(1): 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.
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.
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, Kalinowski J, Nattkemper TW, Goesmann A (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.
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1590204
Brudno M, Medvedev P, Stoye J, De La Vega FM (2009)
A report on the 2009 SIG on short read sequencing and algorithms (Short-SIG).
BIOINFORMATICS 25(21): 2863-2864.
PUB | DOI | WoS | PubMed | Europe PMC
 
2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588783
Purser A, Bergmann M, Ontrup J, Nattkemper TW (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.
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.
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.
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.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919209
Medvedev P, Stoye J (2009)
Rearrangement Models and Single-Cut Operations.
In: Comparative Genomics : International Workshop, RECOMB-CG 2009, Budapest, Hungary, September 27-29, 2009. Proceedings. Lecture Notes in Computer Science, 5817. Berlin, Heidelberg: Springer: 84-97.
PUB | DOI
 
2009 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2018440
Schoening T, Ehnert N, Ontrup J, Nattkemper TW (2009)
BIIGLE Tools - A Web 2.0 Approach for Visual Bioimage Database Mining.
In: IV 09 - Intl. Conference on Information Visualization. .
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, Rupp O, Zakrzewski M, Pühler A, Stoye J, Goesmann A (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.
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, Fritzilas E, Frey B, Rahmann S, Horsthemke B (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.
PUB | DOI | WoS | PubMed | Europe PMC
 
2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2427252
Alekseev VE, Lozin VV, Malyshev D, Milanič M (2008)
The Maximum Independent Set Problem in Planar Graphs.
In: Proc. MFCS 2008. 96-107.
PUB | DOI
 

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