111 Publikationen

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  • [111]
    2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901460
    B. Löwes, et al., “The BRaliBase Dent – a Tale of Benchmark Design and Interpretation”, Briefings in Bioinformatics, vol. 18, 2017, pp. 306-311.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [110]
    2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903044
    T. Gatter, R. Giegerich, and C. Saule, “Integrating Pareto Optimization into Dynamic Programming”, ALGORITHMS, vol. 9, 2016, : 12.
    PUB | DOI | WoS
     
  • [109]
    2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764888 OA
    S. Janssen and R. Giegerich, “Ambivalent covariance models”, BMC Bioinformatics, vol. 16, 2015, : 178.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [108]
    2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2763075 OA
    C. Saule and R. Giegerich, “Pareto optimization in algebraic dynamic programming”, Algorithms for Molecular Biology, vol. 10, 2015, : 22.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [107]
    2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2733607
    J. Reinkensmeier and R. Giegerich, “Thermodynamic matchers for the construction of the cuckoo RNA family”, RNA Biology, vol. 12, 2015, pp. 197-207.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [106]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2905757
    R. Giegerich and H. Touzet, “Modeling Dynamic Programming Problems over Sequences and Trees with Inverse Coupled Rewrite Systems”, Algorithms, vol. 7, 2014, pp. 62-144.
    PUB | DOI
     
  • [105]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2700599
    S. Janssen and R. Giegerich, “The RNA shapes studio”, Bioinformatics, vol. 31, 2014, pp. 423-425.
    PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
     
  • [104]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2699802
    O. Torres-Quesada, et al., “Genome-wide profiling of Hfq-binding RNAs uncovers extensive post-transcriptional rewiring of major stress response and symbiotic regulons in Sinorhizobium meliloti”, RNA Biology, vol. 11, 2014, pp. 563-579.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [103]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2681698
    G. Sauthoff and R. Giegerich, “Yield grammar analysis and product optimization in a domain-specific language for dynamic programming”, Science of Computer Programming, vol. 87, 2014, pp. 2-22.
    PUB | DOI | WoS
     
  • [102]
    2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2699792
    A. Becker, et al., “Riboregulation in plant-associated alpha-proteobacteria”, RNA Biology, vol. 11, 2014, pp. 550-562.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [101]
    2014 | Konferenzband | Veröffentlicht | PUB-ID: 2901695
    R. Giegerich, R. Hofestädt, and T.W. Nattkemper, eds., “German Conference on Bioinformatics 2014”, GI-Edition: lecture notes in informatics, vol. 235, 2014.
    PUB
     
  • [100]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2584661
    J.-P. Schlueter, et al., “Global mapping of transcription start sites and promoter motifs in the symbiotic a-proteobacterium Sinorhizobium meliloti 1021”, Bmc Genomics, vol. 14, 2013, : 156.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [99]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2551798
    G. Sauthoff, et al., “Bellman's GAP -- a Language and Compiler for Dynamic Programming in Sequence Analysis”, Bioinformatics, vol. 29, 2013, pp. 551-560.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [98]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2645192
    A. Gillett, et al., “A Silent Exonic SNP in Kdm3a Affects Nucleic Acids Structure but Does Not Regulate Experimental Autoimmune Encephalomyelitis”, Plos One, vol. 8, 2013, : e81912.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [97]
    2013 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2901275
    B. Löwes and R. Giegerich, “Avoiding Ambiguity and Assessing Uniqueness in Minisatellite Alignment”, German Conference on Bioinformatics 2013, T. Beißbarth, et al., eds., OpenAccess Series in Informatics (OASIcs), vol. 34, Dagstuhl, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013, pp.110-124.
    PUB | DOI
     
  • [96]
    2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2607289
    S. Schirmer and R. Giegerich, “Forest alignment with affine gaps and anchors, applied in RNA structure comparison”, Theoretical Computer Science, vol. 483, 2013, pp. 51-67.
    PUB | DOI | WoS
     
  • [95]
    2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2547307
    M. El-Kalioby, et al., “Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package”, BMC Bioinformatics, vol. 13, 2012, : S22.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [94]
    2012 | Sammelwerksbeitrag | PUB-ID: 2439665
    S. Janssen and R. Giegerich, “Abstract Shape Analysis of RNA”, RNA Bioinformatics t.b.a., J. Gorodkin and Z. Weinberg, eds., 2012, pp.1-35.
    PUB
     
  • [93]
    2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2410526 OA
    S. Janssen, et al., “Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction”, BMC Bioinformatics, vol. 12, 2011, : 429.
    PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
     
  • [92]
    2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427226
    J. Reinkensmeier, et al., “Conservation and Occurrence of Trans-Encoded sRNAs in the Rhizobiales”, GENES, vol. 2, 2011, pp. 925-956.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [91]
    2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383357
    R. Giegerich and G. Sauthoff, “Yield grammar analysis in the Bellman's GAP compiler”, Proceedings of the Eleventh Workshop on Language Descriptions, Tools and Applications (ACM), 2011.
    PUB
     
  • [90]
    2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383363
    S. Schirmer and R. Giegerich, “Forest Alignment with Affine Gaps and Anchors”, Combinatorial Pattern Matching, 2011, pp. 104-117.
    PUB | DOI
     
  • [89]
    2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2310489
    G. Sauthoff, S. Janssen, and R. Giegerich, “Bellman's GAP: a declarative language for dynamic programming”, Proceedings of the 13th international ACM SIGPLAN symposium on Principles and practices of declarative programming, New York, NY, USA: ACM, 2011, pp.29-40.
    PUB | DOI | Download (ext.)
     
  • [88]
    2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2003355
    R. Giegerich and C. Hoener Zu Siederdissen, “Semantics and Ambiguity of Stochastic RNA Family Models”, IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 8, 2011, pp. 499-516.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [87]
    2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093578
    B. Linke, R. Giegerich, and A. Goesmann, “Conveyor: a workflow engine for bioinformatic analyses”, Bioinformatics, vol. 27, 2011, pp. 903-911.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [86]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785512 OA
    A. Bremges, S. Schirmer, and R. Giegerich, “Fine-tuning structural RNA alignments in the twilight zone”, BMC Bioinformatics, vol. 11, 2010, : 222.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [85]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785497 OA
    J.-P. Schlüter, et al., “A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti”, BMC Genomics, vol. 11, 2010, : 245.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [84]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1796697
    C. Brabrand, R. Giegerich, and A. Moller, “Analyzing ambiguity of context-free grammars”, SCIENCE OF COMPUTER PROGRAMMING, vol. 75, 2010, pp. 176-191.
    PUB | DOI | WoS
     
  • [83]
    2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1894008 OA
    C. Theis, S. Janssen, and R. Giegerich, “Prediction of RNA Secondary Structure Including Kissing Hairpin Motifs”, Algorithms in Bioinformatics. 10th international workshop (WABI 2010), proceedings, V. Moulton and M. Singh, eds., Lecture Notes in Bioinformatics, vol. 6293, Berlin: Springer, 2010, pp.52-64.
    PUB | Datei | DOI
     
  • [82]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1893946 OA
    S. Janssen and R. Giegerich, “Faster computation of exact RNA shape probabilities”, Bioinformatics, vol. 26, 2010, pp. 632-639.
    PUB | Datei | DOI | WoS | PubMed | Europe PMC
     
  • [81]
    2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785581 OA
    M. Abouelhoda, M. El-Kalioby, and R. Giegerich, “WAMI: a web server for the analysis of minisatellite maps”, BMC Evolutionary Biology, vol. 10, 2010, : 167.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [80]
    2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589458
    M. Beckstette, et al., “Significant speedup of database searches with HMMs by search space reduction with PSSM family models”, Bioinformatics, vol. 25, 2009, pp. 3251-3258.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [79]
    2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383365
    M. Abouelhoda, et al., “Alignment of minisatellite maps based on run-length encoding scheme”, Journal of Bioinformatics and Computational Biology, vol. 7, 2009, pp. 287-308.
    PUB | DOI | PubMed | Europe PMC
     
  • [78]
    2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383411
    J. Reeder and R. Giegerich, “RNA secondary structure analysis using the RNAshapes package”, Current Protocols in Bioinformatics, vol. 26, 2009, pp. Unit12.8.
    PUB | DOI | PubMed | Europe PMC
     
  • [77]
    2009 | Konferenzbeitrag | Entwurf | PUB-ID: 2383425
    P. Steffen, R. Giegerich, and M. Giraud, “GPU Parallization of Algebraic Dynamic Programming”, Proceedings PPAM, Unpublished.
    PUB
     
  • [76]
    2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1634374
    R. Homann, et al., “mkESA: enhanced suffix array construction tool”, Bioinformatics, vol. 25, 2009, pp. 1084-1085.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [75]
    2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383382
    M.I. Abouelhoda, et al., “Alignment of Minisatellite Maps: A Minimum Spanning Tree based Approach”, Proceedings of the 6th Asia-Pacific Bioinformatics Conference, Series on Advances in Bioinformatics and Computational Biology, 6, 2008, pp.261-272.
    PUB | DOI
     
  • [74]
    2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784020 OA
    A.-L. Lamprecht, et al., “GeneFisher-P: variations of GeneFisher as processes in Bio-jETI”, BMC Bioinformatics, vol. 9, 2008, : S13.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [73]
    2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784025 OA
    J. Herold, S. Kurtz, and R. Giegerich, “Efficient computation of absent words in genomic sequences”, BMC Bioinformatics, vol. 9, 2008, : 167.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [72]
    2008 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1587496
    K. Gkogkoglou, et al., “Looking for non-coding RNAs in Corynebacterium glutamicum”, FEBS JOURNAL, vol. 275, 2008, pp. 153.
    PUB | WoS
     
  • [71]
    2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588303
    A. Sczyrba, S. Konermann, and R. Giegerich, “Two interactive bioinformatics courses at the bielefeld university bioinformatics server”, BRIEFINGS IN BIOINFORMATICS, vol. 9, 2008, pp. 243-249.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [70]
    2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588308
    R. Giegerich, et al., “The BREW workshop series: a stimulating experience in PhD education”, Briefings in Bioinformatics, vol. 9, 2008, pp. 250-253.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [69]
    2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783357 OA
    C. Theis, J. Reeder, and R. Giegerich, “KnotInFrame: prediction of –1 ribosomal frameshift events”, Nucleic Acids Research, vol. 36, 2008, pp. 6013-6020.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [68]
    2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1893917 OA
    S. Janssen, J. Reeder, and R. Giegerich, “Shape based indexing for faster search of RNA family databases”, BMC Bioinformatics, vol. 9, 2008, pp. 131.
    PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
     
  • [67]
    2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1593132
    J. Reeder, J. Reeder, and R. Giegerich, “Locomotif: from graphical motif description to RNA motif search”, Bioinformatics, Bioinformatics, vol. 23, OXFORD UNIV PRESS, 2007, pp.I392-I400.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [66]
    2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383428
    C. Brabrand, R. Giegerich, and A. Moeller, “Analyzing Ambiguity of Context-Free Grammars”, Implementation and Application of Automata. 12th International Conference, CIAA 2007, July 16-18, 2007, Revised Selected Papers, J. Holub and J. Žďárek, eds., Lecture Notes in Computer Science, 4783, Springer, 2007.
    PUB | DOI
     
  • [65]
    2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383462
    S. Hartmeier, J. Krüger, and R. Giegerich, “Webservices and Workflows on the Bielefeld Bioinformatics Server: Practices and Problems”, Proceedings, 2007.
    PUB
     
  • [64]
    2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1587974 OA
    J. Reeder, P. Steffen, and R. Giegerich, “pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows”, NUCLEIC ACIDS RESEARCH, vol. 35, 2007, pp. W320-W324.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [63]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773864 OA
    M. Beckstette, et al., “Fast index based algorithms and software for matching position specific scoring matrices”, BMC Bioinformatics, vol. 7, 2006, : 389.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [62]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1597065
    M. Baake, U. Grimm, and R. Giegerich, “Surprises in approximating Levenshtein distances”, JOURNAL OF THEORETICAL BIOLOGY, vol. 243, 2006, pp. 279-282.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [61]
    2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383464
    R. Giegerich and P. Steffen, “Challenges in the Compilation of a Domain Specific Language for Dynamic Programming”, Proceedings of te 2006 ACM Symposium on Applied Computing, 2006.
    PUB
     
  • [60]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1902179
    W. Gerlach and R. Giegerich, “GUUGle: a utility for fast exact matching under RNA complementary rules including G-U base pairing.”, Bioinformatics, vol. 22, 2006, pp. 762-764.
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  • [59]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1946336
    T. Höchsmann, M. Höchsmann, and R. Giegerich, “Thermodynamic matchers: strengthening the significance of RNA folding energies”, Comput Syst Bioinformatics Conf, 2006, pp. 111-121.
    PUB | DOI | PubMed | Europe PMC
     
  • [58]
    2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383518
    J. Reeder and R. Giegerich, “A graphical programming system for molecular motif search”, Proceedings of the 5th International Conference on Generative Programming and Component Engineering, ACM Press, 2006, pp.131-140.
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  • [57]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773871 OA
    P.N. Seibel, et al., “XML schemas for common bioinformatic data types and their application in workflow systems”, BMC Bioinformatics, vol. 7, 2006, : 490.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [56]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1600726
    K. Malde and R. Giegerich, “Calculating PSSM probabilities with lazy dynamic programming”, Jornal of Functional Programming, vol. 16, 2006, pp. 75-81.
    PUB | DOI | WoS
     
  • [55]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773640 OA
    P. Steffen and R. Giegerich, “Correction: Versatile and declarative dynamic programming using pair algebras”, BMC Bioinformatics, vol. 7, 2006, : 214.
    PUB | PDF | DOI | WoS
     
  • [54]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1597805
    P. Steffen and R. Giegerich, “Table design in dynamic programming”, INFORMATION AND COMPUTATION, vol. 204, 2006, pp. 1325-1345.
    PUB | DOI | WoS
     
  • [53]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1600421
    P. Steffen, et al., “RNAshapes: an integrated RNA analysis package based on abstract shapes”, Bioinformatics, vol. 22, 2006, pp. 500-503.
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  • [52]
    2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773637 OA
    B. Voß, R. Giegerich, and M. Rehmsmeier, “Complete probabilistic analysis of RNA shapes”, BMC Biology, vol. 4, 2006, : 5.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [51]
    2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1598807
    J. Reeder, et al., “Beyond Mfold: recent advances in RNA bioinformatics”, Journal of Biotechnology, JOURNAL OF BIOTECHNOLOGY, vol. 124, ELSEVIER SCIENCE BV, 2006, pp.41-55.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [50]
    2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773613 OA
    A. Sczyrba, et al., “XenDB: Full length cDNA prediction and cross species mapping in Xenopus laevis”, BMC Genomics, vol. 6, 2005, : 123.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [49]
    2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1602431
    J. Reeder and R. Giegerich, “Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction”, BIOINFORMATICS, vol. 21, 2005, pp. 3516-3523.
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  • [48]
    2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773595 OA
    J. Reeder, P. Steffen, and R. Giegerich, “Effective ambiguity checking in biosequence analysis”, BMC Bioinformatics, vol. 6, 2005, : 153.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [47]
    2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773598 OA
    P. Steffen and R. Giegerich, “Versatile and declarative dynamic programming using pair algebras”, BMC Bioinformatics, vol. 6, 2005, : 224.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [46]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383529
    M. Beckstette, et al., “Genlight: Interactive high-throughput sequence analysis and comparative genomics”, Journal of Integrative Bioinformatics, vol. 1, 2004, pp. 90-107.
    PUB | DOI
     
  • [45]
    2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383561
    A. Sczyrba, et al., “Identification of 10,500 Xenopus laevis Full Length Clones through EST Clustering and Sequence Analysis”, German Conference on Bioinformatics 2004 : GCB 2004, October 4 - 6, 2004, Bielefeld, Germany , R. Giegerich and J. Stoye, eds., GI-Edition / Proceedings, vol. 53, Bonn: Gesellschaft für Informatik, 2004, pp.6-7.
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  • [44]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607394 OA
    J. Krüger, et al., “e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences”, NUCLEIC ACIDS RESEARCH, vol. 32, 2004, pp. W301-W304.
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  • [43]
    2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383543
    M. Beckstette, et al., “PoSSuMsearch: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays”, Proceedings of the German Conference on Bioinformatics, Lecture Notes in Informatics: GI, 2004, pp.53-64.
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  • [42]
    2004 | Konferenzband | Veröffentlicht | PUB-ID: 1918823
    R. Giegerich and J. Stoye, eds., “Proceedings of the German Conference on Bioinformatics, GCB 2004”, Lecture Notes in Informatics, vol. P-53, 2004, pp. 234.
    PUB
     
  • [41]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1606377
    M. Rehmsmeier, et al., “Fast and effective prediction of microRNA/target duplexes”, RNA-A PUBLICATION OF THE RNA SOCIETY, vol. 10, 2004, pp. 1507-1517.
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  • [40]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1606822
    J.V. Choudhuri, et al., “GenAlyzer: interactive visualization of sequence similarities between entire genomes”, BIOINFORMATICS, vol. 20, 2004, pp. 1964-1965.
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  • [39]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607419
    B. Voss, C. Meyer, and R. Giegerich, “Evaluating the predictability of conformational switching in RNA”, Bioinformatics, vol. 20, 2004, pp. 1573-1582.
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  • [38]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607656
    R. Giegerich, C. Meyer, and P. Steffen, “A discipline of dynamic programming over sequence data”, SCIENCE OF COMPUTER PROGRAMMING, vol. 51, 2004, pp. 215-263.
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  • [37]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1606393 OA
    R. Giegerich, B. Voss, and M. Rehmsmeier, “Abstract shapes of RNA”, Nucleic Acids Research, vol. 32, 2004, pp. 4843-4851.
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  • [36]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773758 OA
    J. Reeder and R. Giegerich, “Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics”, BMC Bioinformatics, vol. 5, 2004, : 104.
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  • [35]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773747 OA
    P.P. Gardner and R. Giegerich, “A comprehensive comparison of comparative RNA structure prediction approaches”, BMC Bioinformatics, vol. 5, 2004, : 140.
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  • [34]
    2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1600293
    M. Höchsmann, B. Voss, and R. Giegerich, “Pure multiple RNA secondary structure alignments: A progressive profile approach”, IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATIOCS, vol. 1, 2004, pp. 53-62.
    PUB | DOI | WoS | PubMed | Europe PMC
     
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    2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773844 OA
    A. Sczyrba, et al., “RNA-related tools on the Bielefeld Bioinformatics Server”, Nucleic Acids Research, vol. 31, 2003, pp. 3767-3770.
    PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
     
  • [32]
    2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383602
    A. Dress, et al., “Fibonacci-Cayley-numbers and Repetition Pattern in Genomic DNA”, Annals of Combinatorics, 2003, pp. 259-279.
    PUB
     
  • [31]
    2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1918949
    R. Giegerich and J. Stoye, “Finden, fast ohne zu suchen: Indexstrukturen in der Bioinformatik”, Forschung an der Universität Bielefeld, vol. 26, 2003, pp. 63-68.
    PUB
     
  • [30]
    2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1610397 OA
    R. Giegerich, S. Kurtz, and J. Stoye, “Efficient implementation of lazy suffix trees”, SOFTWARE-PRACTICE & EXPERIENCE, vol. 33, 2003, pp. 1035-1049.
    PUB | PDF | DOI | WoS
     
  • [29]
    2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773880 OA
    F. Meyer, et al., “GenDB - an open source genome annotation system for prokaryote genomes”, Nucleic Acids Research, vol. 31, 2003, pp. 2187-2195.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [28]
    2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1666680
    M. Höchsmann, et al., “Local similarity in RNA secondary structures.”, Proc IEEE Comput Soc Bioinform Conf, vol. 2, 2003, pp. 159-168.
    PUB | PubMed | Europe PMC
     
  • [27]
    2002 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383608
    R. Giegerich and C. Meyer, “Algebraic Dynamic Programming”, Algebraic Methodology and Software Technology, Springer, 2002, pp.349-364.
    PUB
     
  • [26]
    2002 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1614870
    C. Meyer and R. Giegerich, “Matching and significance evaluation of combined sequence-structure motifs in RNA”, ZEITSCHRIFT FÜR PHYSIKALISCHE CHEMIE-INTERNATIONAL JOURNAL OF RESEARCH IN PHYSICAL CHEMISTRY & CHEMICAL PHYSICS, vol. 216, 2002, pp. 193-216.
    PUB | DOI | WoS
     
  • [25]
    2002 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1615366
    A. Goesmann, et al., “PathFinder: reconstruction and dynamic visualization of metabolic pathways”, BIOINFORMATICS, vol. 18, 2002, pp. 124-129.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [24]
    2002 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1612812
    R. Giegerich and P. Steffen, “Implementing algebraic dynamic programming in the functional and the imperative programming paradigm”, MATHEMATICS OF PROGRAM CONSTRUCTION, E. Boiten, ed., Lecture Notes in Computer Science, vol. 2386, Berlin ; Heidelberg ; New York ; Barcelona ; Hong Kong ; London ; Milan ; Paris ; Tokyo: SPRINGER-VERLAG BERLIN, 2002, pp.1-20.
    PUB | WoS
     
  • [23]
    2001 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383615
    D. Evers and R. Giegerich, “Reducing the Conformation Space in RNA Structure Prediction”, Proceedings of the German Conference on Bioinformatics, 2001, pp.118-124.
    PUB
     
  • [22]
    2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1615460
    G. Fuellen, J.W. Wägele, and R. Giegerich, “Best systematist practice transferred to molecular data”, ORGANISMS DIVERSITY & EVOLUTION, vol. 1, 2001, pp. 257-272.
    PUB | DOI | WoS
     
  • [21]
    2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1615572
    G. Fuellen, J.W. Wägele, and R. Giegerich, “Minimum conflict: a divide-and-conquer approach to phylogeny estimation”, BIOINFORMATICS, vol. 17, 2001, pp. 1168-1178.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [20]
    2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773335 OA
    S. Kurtz, et al., “REPuter: the manifold applications of repeat analysis on a genomic scale”, Nucleic Acids Research, vol. 29, 2001, pp. 4633-4642.
    PUB | PDF | DOI | WoS | PubMed | Europe PMC
     
  • [19]
    2000 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383618
    R. Giegerich and D. Evers, “Bioinformatik: Jäger, Sammler und Forscher im Daten-Dschungel der Molekularbiologie”, BIOforum, vol. 1-2, 2000, pp. 30-32.
    PUB
     
  • [18]
    2000 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1618572
    R. Giegerich, “Explaining and controlling ambiguity in dynamic programming”, Combinatorial Pattern Matching. 11th Annual Symposium CPM 2000, Proceedings, R. Giancarlo and D. Sankoff, eds., Lecture Notes in Computer Science, vol. 1848, Berlin: Springer, 2000, pp.46-59.
    PUB | WoS
     
  • [17]
    2000 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1618574
    R. Giegerich, “A systematic approach to dynamic programming in bioinformatics”, BIOINFORMATICS, vol. 16, 2000, pp. 665-677.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [16]
    2000 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1918988
    S. Kurtz, et al., “Computation and Visualization of Degenerate Repeats in Complete Genomes”, Proc. of ISMB 2000, 2000, pp.228-238.
    PUB | PubMed | Europe PMC
     
  • [15]
    1999 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1947682
    R. Giegerich, D. Haase, and M. Rehmsmeier, “Prediction and visualization of structural switches in RNA”, Pac Symp Biocomput, 1999, pp. 126-137.
    PUB | PubMed | Europe PMC
     
  • [14]
    1999 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1620435
    R. Giegerich, S. Kurtz, and J. Stoye, “Efficient implementation of lazy suffix trees”, Algorithm Engineering. 3rd International Workshop, WAE’99 London, UK, July 19–21, 1999 Proceedings, LNCS, vol. 1668, 1999, pp.30-42.
    PUB | DOI | WoS
     
  • [13]
    1999 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1623374
    D.J. Evers and R. Giegerich, “RNA movies: visualizing RNA secondary structure spaces”, BIOINFORMATICS, vol. 15, 1999, pp. 32-37.
    PUB | DOI | WoS | PubMed | Europe PMC
     
  • [12]
    1998 | Konferenzbeitrag | PUB-ID: 1883741
    D. Lorenz and R. Giegerich, “ViSeL: An interactive Virtual Laboratory for DNA Sequencing”, Tagungsband zum Workshop "Multimedia-Systeme" im Rahmen der GI-Jahrestagung 1998, Magdeburg: 1998, pp.53-65.
    PUB
     
  • [11]
    1997 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383634
    G. Fuellen and R. Giegerich, “International, interdisziplinär und interaaktiv: Der VSNS-Kurs über BioComputing”, Proceedings: Virtueller Campus, 1997, pp.77-89.
    PUB
     
  • [10]
    1997 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1627522
    R. Giegerich and S. Kurtz, “From Ukkonen to McCreight and Weiner: A unifying view of linear-time suffix tree construction”, ALGORITHMICA, vol. 19, 1997, pp. 331-353.
    PUB | DOI | WoS
     
  • [9]
    1996 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1639486
    W. Grüner, et al., “Analysis of RNA sequence structure maps by exhaustive enumeration .2. structures of neutral networks and shape space covering”, Monatshefte für Chemie, vol. 127, 1996, pp. 375-389.
    PUB | DOI | WoS
     
  • [8]
    1996 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1639477
    W. Grüner, et al., “Analysis of RNA sequence structure maps by exhaustive enumeration .1. Neutral networks”, Monatshefte für Chemie, vol. 127, 1996, pp. 355-374.
    PUB | DOI | WoS
     
  • [7]
    1996 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1947921
    R. Giegerich, F. Meyer, and C. Schleiermacher, “GeneFisher--software support for the detection of postulated genes”, Proc Int Conf Intell Syst Mol Biol, vol. 4, 1996, pp. 68-77.
    PUB | PubMed | Europe PMC
     
  • [6]
    1995 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1628987
    R. Giegerich and S. Kurtz, “A comparison of imperative and purely functional suffix tree constructions”, Science of Computer Programming, SCIENCE OF COMPUTER PROGRAMMING, vol. 25, ELSEVIER SCIENCE BV, 1995, pp.187-218.
    PUB | DOI | WoS
     
  • [5]
    1995 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1639513
    B. Bütow, et al., “A new calculus for semantic matching”, Programming languages: implementations, logics and programs. 7th international symposium ; proceedings, M. Hermenegildo and S.D. Swierstra, eds., Lecture Notes in Computer Science, vol. 982, Berlin: Springer, 1995, pp.81-96.
    PUB | WoS
     
  • [4]
    1992 | Report | PUB-ID: 2383632
    R. Giegerich, Embedding Sequence Analysis in the Functional Programming Paradigm - A Feasability Study, Report No. 8, Universität Bielefeld: Technische Fakultät, 1992.
    PUB
     
  • [3]
    1991 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383627
    R. Giegerich and E. Ohlebusch, “An Implicit Representation of Infinite Sequences of Terms”, Bulletin of the EATCS, vol. 43, 1991, pp. 174-182.
    PUB
     
  • [2]
    1990 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1651134
    R. Giegerich, “CODE SELECTION BY INVERSION OF ORDER-SORTED DERIVORS”, Theoretical Computer Science, THEORETICAL COMPUTER SCIENCE, vol. 73, ELSEVIER SCIENCE BV, 1990, pp.177-211.
    PUB | DOI | WoS
     
  • [1]
    1990 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1651466
    R. Giegerich, “ON THE STRUCTURE OF VERIFIABLE CODE GENERATOR SPECIFICATIONS”, SIGPLAN NOTICES, vol. 25, 1990, pp. 1-8.
    PUB | WoS
     

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