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50 Publikationen

2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2919006
Rubert, D., Hoshino, E. A., Dias Vieira Braga, M., Stoye, J., and Martinez, F. H. V. (2018). Computing the family-free DCJ similarity. BMC Bioinformatics 19:152.
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2910493
Romano, P., Hofestädt, R., Lange, M., and D'Elia, D. (2017). The joint NETTAB/Integrative Bioinformatics 2015 Meeting: aims, topics and outcomes. BMC BIOINFORMATICS 18:101.
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2907670
Feijão, P., and Soares de Araujo, F. E. (2016). Fast ancestral gene order reconstruction of genomes with unequal gene content. BMC Bioinformatics 17:413.
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2775617
Stadermann, K. B., Weisshaar, B., and Holtgräwe, D. (2015). SMRT sequencing only de novo assembly of the sugar beet (Beta vulgaris) chloroplast genome. BMC Bioinformatics 16:295.
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764888
Janssen, S., and Giegerich, R. (2015). Ambivalent covariance models. BMC Bioinformatics 16:178.
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2900856
Feijão, P., Martinez, F., and Thévenin, A. (2015). On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance. BMC Bioinformatics 16:S1.
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2783101
Feijão, P. (2015). Reconstruction of ancestral gene orders using intermediate genomes. BMC Bioinformatics 16:S3.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2575011
Ander, C., Schulz-Trieglaff, O. B., Stoye, J., and Cox, A. J. (2013). metaBEETL: high-throughput analysis of heterogeneous microbial populations from shotgun DNA sequences. BMC Bioinformatics 14, S2.
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2611633
Jahn, K., Winter, S., Stoye, J., and Böcker, S. (2013). Statistics for approximate gene clusters. BMC Bioinformatics 14, S14.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2512642
Dörr, D., Thévenin, A., and Stoye, J. (2012). Gene family assignment-free comparative genomics. BMC Bioinformatics 13, S3.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2517239
Hoffmann, N., Keck, M., Neuweger, H., Wilhelm, M., Högy, P., Niehaus, K., and Stoye, J. (2012). Combining peak- and chromatogram-based retention time alignment algorithms for multiple chromatography-mass spectrometry datasets. BMC Bioinformatics 13, 21.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2553300
Manuch, J., Patterson, M., Wittler, R., Chauve, C., and Tannier, E. (2012). Linearization of ancestral multichromosomal genomes. BMC Bioinformatics 13.
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2547307
El-Kalioby, M., Abouelhoda, M., Krüger, J., Giegerich, R., Sczyrba, A., Wall, D. P., and Tonellato, P. (2012). Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics 13, S22.
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2410526
Janssen, S., Schudoma, C., Steger, G., and Giegerich, R. (2011). Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction. BMC Bioinformatics 12, 429.
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2300082
Loyek, C., Khan, M., Rajpoot, N., and Nattkemper, T. W. (2011). BIOIMAX - A Web 2.0 approach for easy exploratory and collaborative access to multivariate bioimage data. BMC Bioinformatics 12, 297.
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2603576
Thomas, P. E., Klinger, R., Furlong, L. I., Hofmann-Apitius, M., and Friedrich, C. M. (2011). Challenges in the association of human single nucleotide polymorphism mentions with unique database identifiers. BMC Bioinformatics 12, S4.
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2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2329973
Wittler, R., and Chauve, C. (2011). Consistency-based detection of potential tumor-specific deletions in matched normal/tumor genomes. BMC Bioinformatics 12, S21.
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2425310
Wolfsheimer, S., Herms, I., Rahmann, S., and Hartmann, A. K. (2011). Accurate statistics for local sequence alignment with position-dependent scoring by rare-event sampling. BMC Bioinformatics 12, 47-2105.
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2091779
Hufsky, F., Kuchenbecker, L., Jahn, K., Stoye, J., and Böcker, S. (2011). Swiftly Computing Center Strings. BMC Bioinformatics 12, 106.
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2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2906810
Bremges, A., Schirmer, S., and Giegerich, R. (2010). Fine-tuning structural RNA alignments in the twilight zone. BMC Bioinformatics 11:222.
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2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2316624
Gurtowski, J., Cancio, A., Shah, H., Levovitz, C., George, A., Homann, R., and Sachidanandam, R. (2010). Geoseq: a tool for dissecting deep-sequencing datasets. BMC Bioinformatics 11, 506.
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2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785512
Bremges, A., Schirmer, S., and Giegerich, R. (2010). Fine-tuning structural RNA alignments in the twilight zone. BMC Bioinformatics 11, 222.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2603504
Corinna, K., Klinger, R., and Hofmann-Apitius, M. (2009). Identification of Histone Modifications in Biomedical Text for Supporting Epigenomic Research. BMC Bioinformatics 10, S28.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783187
Blom, J., Albaum, S., Doppmeier, D., Pühler, A., Vorhölter, F. - J., Zakrzewski, M., and Goesmann, A. (2009). EDGAR: a software framework for the comparative analysis of prokaryotic genomes. BMC Bioinformatics 10:154.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1635314
Diaz, N. N., Krause, L., Goesmann, A., Niehaus, K., and Nattkemper, T. W. (2009). TACOA - Taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach. BMC Bioinformatics 10, 56.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1635321
Dondrup, M., Albaum, S., Griebel, T., Henckel, K., Jünemann, S., Kahlke, T., Kleindt, C. K., Kuester, H., Linke, B., Mertens, D., et al. (2009). EMMA 2-A MAGE-compliant system for the collaborative analysis and integration of microarray data. BMC Bioinformatics 10:50.
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2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589098
Gerlach, W., Jünemann, S., Tille, F., Goesmann, A., and Stoye, J. (2009). WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads. BMC Bioinformatics 10, 430.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784020
Lamprecht, A. - L., Margaria, T., Steffen, B., Sczyrba, A., Hartmeier, S., and Giegerich, R. (2008). GeneFisher-P: variations of GeneFisher as processes in Bio-jETI. BMC Bioinformatics 9, S13.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784025
Herold, J., Kurtz, S., and Giegerich, R. (2008). Efficient computation of absent words in genomic sequences. BMC Bioinformatics 9, 167.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783280
Tscherepanow, M., Jensen, N., and Kummert, F. (2008). An incremental approach to automated protein localisation. BMC Bioinformatics 9, 445.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1636280
Timm, W., Scherbart, A., Boecker, S., Kohlbacher, O., and Nattkemper, T. W. (2008). Peak intensity prediction in MALDI-TOF mass spectrometry: A machine learning study to support quantitative proteomics. BMC Bioinformatics 9, 443.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1585611
Wei, N., Flaschel, E., Friehs, K., and Nattkemper, T. W. (2008). A machine vision system for automated non-invasive assessment of cell viability via dark field microscopy, wavelet feature selection and classification. BMC Bioinformatics 9, 449.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1893917
Janssen, S., Reeder, J., and Giegerich, R. (2008). Shape based indexing for faster search of RNA family databases. BMC Bioinformatics 9, 131.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2499132
Baumbach, J. (2007). CoryneRegNet 4.0 – A reference database for corynebacterial gene regulatory networks. BMC Bioinformatics 8, 429.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783712
Kaltenbach, H. - M., Wilke, A., and Böcker, S. (2007). SAMPI: protein identification with mass spectra alignments. BMC Bioinformatics 8, 102.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783743
Baumbach, J. (2007). CoryneRegNet 4.0: a reference database for corynebacterial gene regulatory networks. BMC Bioinformatics 8, 429.
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2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784011
Wittkop, T., Baumbach, J., Lobo, F. P., and Rahmann, S. (2007). Large scale clustering of protein sequences with FORCE - a layout based heuristic for weighted cluster editing. BMC Bioinformatics 8, 396.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773701
Köhler, J., Munn, K., Rüegg, A., Skusa, A., and Smith, B. (2006). Quality control for terms and definitions in ontologies and taxonomies. BMC Bioinformatics 7, 212.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773864
Beckstette, M., Homann, R., Giegerich, R., and Kurtz, S. (2006). Fast index based algorithms and software for matching position specific scoring matrices. BMC Bioinformatics 7, 389.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773871
Seibel, P. N., Krüger, J., Hartmeier, S., Schwarzer, K., Löwenthal, K., Mersch, H., Dandekar, T., and Giegerich, R. (2006). XML schemas for common bioinformatic data types and their application in workflow systems. BMC Bioinformatics 7, 490.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773640
Steffen, P., and Giegerich, R. (2006). Correction: Versatile and declarative dynamic programming using pair algebras. BMC Bioinformatics 7, 214.
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2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1599756
Spitzer, M., Lorkowski, S., Cullen, P., Sczyrba, A., and Fuellen, G. (2006). IsoSVM - Distinguishing isoforms and paralogs on the protein level. BMC Bioinformatics 7, 110.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1775168
Krause, A., Stoye, J., and Vingron, M. (2005). Large scale hierarchical clustering of protein sequences. BMC Bioinformatics 6, 15.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773595
Reeder, J., Steffen, P., and Giegerich, R. (2005). Effective ambiguity checking in biosequence analysis. BMC Bioinformatics 6, 153.
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773598
Steffen, P., and Giegerich, R. (2005). Versatile and declarative dynamic programming using pair algebras. BMC Bioinformatics 6, 224.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773554
Pollard, D. A., Bergman, C. M., Stoye, J., Celniker, S. E., and Eisen, M. B. (2004). Correction: Benchmarking tools for the alignment of functional noncoding DNA. BMC Bioinformatics 5, 73.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773758
Reeder, J., and Giegerich, R. (2004). Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. BMC Bioinformatics 5, 104.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773312
Pollard, D. A., Bergman, C. M., Stoye, J., Celniker, S. E., and Eisen, M. B. (2004). Benchmarking tools for the alignment of functional noncoding DNA. BMC Bioinformatics 5, 6.
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773747
Gardner, P. P., and Giegerich, R. (2004). A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics 5, 140.
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773767
Brudno, M., Chapman, M., Göttgens, B., Batzoglou, S., and Morgenstern, B. (2003). Fast and sensitive multiple alignment of large genomic sequences. BMC Bioinformatics 4, 66.
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