PUB - Publikationen an der Universität Bielefeld

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• [111]
  

  2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901460

  Löwes, B., et al., 2017. The BRaliBase Dent – a Tale of Benchmark Design and Interpretation. Briefings in Bioinformatics, 18(2), p 306-311.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [110]
  

  2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903044

  Gatter, T., Giegerich, R., & Saule, C., 2016. Integrating Pareto Optimization into Dynamic Programming. ALGORITHMS, 9(1): 12.

  PUB | DOI | WoS
   
• [109]
  

  2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764888

  Janssen, S., & Giegerich, R., 2015. Ambivalent covariance models. BMC Bioinformatics, 16(1): 178.

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [108]
  

  2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2763075

  Saule, C., & Giegerich, R., 2015. Pareto optimization in algebraic dynamic programming. Algorithms for Molecular Biology, 10(1): 22.

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• [107]
  

  2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2733607

  Reinkensmeier, J., & Giegerich, R., 2015. Thermodynamic matchers for the construction of the cuckoo RNA family. RNA Biology, 12(2), p 197-207.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [106]
  

  2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2905757

  Giegerich, R., & Touzet, H., 2014. Modeling Dynamic Programming Problems over Sequences and Trees with Inverse Coupled Rewrite Systems. Algorithms, 7(1), p 62-144.

  PUB | DOI
   
• [105]
  

  2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2700599

  Janssen, S., & Giegerich, R., 2014. The RNA shapes studio. Bioinformatics, 31(3), p 423-425.

  PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
   
• [104]
  

  2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2699802

  Torres-Quesada, O., et al., 2014. Genome-wide profiling of Hfq-binding RNAs uncovers extensive post-transcriptional rewiring of major stress response and symbiotic regulons in Sinorhizobium meliloti. RNA Biology, 11(5), p 563-579.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [103]
  

  2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2681698

  Sauthoff, G., & Giegerich, R., 2014. Yield grammar analysis and product optimization in a domain-specific language for dynamic programming. Science of Computer Programming, 87, p 2-22.

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• [102]
  

  2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2699792

  Becker, A., et al., 2014. Riboregulation in plant-associated alpha-proteobacteria. RNA Biology, 11(5), p 550-562.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [101]
  

  2014 | Konferenzband | Veröffentlicht | PUB-ID: 2901695

  R. Giegerich, R. Hofestädt, & T. W. Nattkemper, eds., 2014. German Conference on Bioinformatics 2014. GI-Edition: lecture notes in informatics, 235.

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• [100]
  

  2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2584661

  Schlueter, J.-P., et al., 2013. Global mapping of transcription start sites and promoter motifs in the symbiotic a-proteobacterium Sinorhizobium meliloti 1021. Bmc Genomics, 14(1): 156.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [99]
  

  2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2551798

  Sauthoff, G., et al., 2013. Bellman's GAP -- a Language and Compiler for Dynamic Programming in Sequence Analysis. Bioinformatics, 29(5), p 551-560.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [98]
  

  2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2645192

  Gillett, A., et al., 2013. A Silent Exonic SNP in Kdm3a Affects Nucleic Acids Structure but Does Not Regulate Experimental Autoimmune Encephalomyelitis. Plos One, 8(12): e81912.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [97]
  

  2013 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2901275

  Löwes, B., & Giegerich, R., 2013. Avoiding Ambiguity and Assessing Uniqueness in Minisatellite Alignment. In T. Beißbarth, et al., eds. German Conference on Bioinformatics 2013. OpenAccess Series in Informatics (OASIcs). no.34 Dagstuhl, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik, pp. 110-124.

  PUB | DOI
   
• [96]
  

  2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2607289

  Schirmer, S., & Giegerich, R., 2013. Forest alignment with affine gaps and anchors, applied in RNA structure comparison. Theoretical Computer Science, 483, p 51-67.

  PUB | DOI | WoS
   
• [95]
  

  2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2547307

  El-Kalioby, M., et al., 2012. Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics, 13(Suppl 17): S22.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [94]
  

  2012 | Sammelwerksbeitrag | PUB-ID: 2439665

  Janssen, S., & Giegerich, R., 2012. Abstract Shape Analysis of RNA. In J. Gorodkin & Z. Weinberg, eds. RNA Bioinformatics t.b.a. pp. 1-35.

  PUB
   
• [93]
  

  2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2410526

  Janssen, S., et al., 2011. Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction. BMC Bioinformatics, 12(1): 429.

  PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
   
• [92]
  

  2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2427226

  Reinkensmeier, J., et al., 2011. Conservation and Occurrence of Trans-Encoded sRNAs in the Rhizobiales. GENES, 2(4), p 925-956.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [91]
  

  2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383357

  Giegerich, R., & Sauthoff, G., 2011. Yield grammar analysis in the Bellman's GAP compiler. In Proceedings of the Eleventh Workshop on Language Descriptions, Tools and Applications (ACM).

  PUB
   
• [90]
  

  2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383363

  Schirmer, S., & Giegerich, R., 2011. Forest Alignment with Affine Gaps and Anchors. Combinatorial Pattern Matching, , p 104-117.

  PUB | DOI
   
• [89]
  

  2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2310489

  Sauthoff, G., Janssen, S., & Giegerich, R., 2011. Bellman's GAP: a declarative language for dynamic programming. In Proceedings of the 13th international ACM SIGPLAN symposium on Principles and practices of declarative programming. New York, NY, USA: ACM, pp. 29-40.

  PUB | DOI | Download (ext.)
   
• [88]
  

  2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2003355

  Giegerich, R., & Hoener Zu Siederdissen, C., 2011. Semantics and Ambiguity of Stochastic RNA Family Models. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 8(2), p 499-516.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [87]
  

  2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2093578

  Linke, B., Giegerich, R., & Goesmann, A., 2011. Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics, 27(7), p 903-911.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [86]
  

  2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785512

  Bremges, A., Schirmer, S., & Giegerich, R., 2010. Fine-tuning structural RNA alignments in the twilight zone. BMC Bioinformatics, 11(1): 222.

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [85]
  

  2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785497

  Schlüter, J.-P., et al., 2010. A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti. BMC Genomics, 11(1): 245.

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [84]
  

  2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1796697

  Brabrand, C., Giegerich, R., & Moller, A., 2010. Analyzing ambiguity of context-free grammars. SCIENCE OF COMPUTER PROGRAMMING, 75(3), p 176-191.

  PUB | DOI | WoS
   
• [83]
  

  2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1894008

  Theis, C., Janssen, S., & Giegerich, R., 2010. Prediction of RNA Secondary Structure Including Kissing Hairpin Motifs. In V. Moulton & M. Singh, eds. Algorithms in Bioinformatics. 10th international workshop (WABI 2010), proceedings. Lecture Notes in Bioinformatics. no.6293 Berlin: Springer, pp. 52-64.

  PUB | Datei | DOI
   
• [82]
  

  2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1893946

  Janssen, S., & Giegerich, R., 2010. Faster computation of exact RNA shape probabilities. Bioinformatics, 26(5), p 632-639.

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• [81]
  

  2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1785581

  Abouelhoda, M., El-Kalioby, M., & Giegerich, R., 2010. WAMI: a web server for the analysis of minisatellite maps. BMC Evolutionary Biology, 10(1): 167.

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [80]
  

  2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1589458

  Beckstette, M., et al., 2009. Significant speedup of database searches with HMMs by search space reduction with PSSM family models. Bioinformatics, 25(24), p 3251-3258.

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• [79]
  

  2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383365

  Abouelhoda, M., et al., 2009. Alignment of minisatellite maps based on run-length encoding scheme. Journal of Bioinformatics and Computational Biology, 7(02), p 287-308.

  PUB | DOI | PubMed | Europe PMC
   
• [78]
  

  2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383411

  Reeder, J., & Giegerich, R., 2009. RNA secondary structure analysis using the RNAshapes package. Current Protocols in Bioinformatics, 26(1), p Unit12.8.

  PUB | DOI | PubMed | Europe PMC
   
• [77]
  

  2009 | Konferenzbeitrag | Entwurf | PUB-ID: 2383425

  Steffen, P., Giegerich, R., & Giraud, M., Unpublished. GPU Parallization of Algebraic Dynamic Programming. In Proceedings PPAM.

  PUB
   
• [76]
  

  2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1634374

  Homann, R., et al., 2009. mkESA: enhanced suffix array construction tool. Bioinformatics, 25(8), p 1084-1085.

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• [75]
  

  2008 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383382

  Abouelhoda, M.I., et al., 2008. Alignment of Minisatellite Maps: A Minimum Spanning Tree based Approach. In Proceedings of the 6th Asia-Pacific Bioinformatics Conference. Series on Advances in Bioinformatics and Computational Biology, 6. pp. 261-272.

  PUB | DOI
   
• [74]
  

  2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784020

  Lamprecht, A.-L., et al., 2008. GeneFisher-P: variations of GeneFisher as processes in Bio-jETI. BMC Bioinformatics, 9(Suppl 4): S13.

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• [73]
  

  2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784025

  Herold, J., Kurtz, S., & Giegerich, R., 2008. Efficient computation of absent words in genomic sequences. BMC Bioinformatics, 9(1): 167.

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• [72]
  

  2008 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 1587496

  Gkogkoglou, K., et al., 2008. Looking for non-coding RNAs in Corynebacterium glutamicum. FEBS JOURNAL, 275(Suppl. 1), p 153.

  PUB | WoS
   
• [71]
  

  2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588303

  Sczyrba, A., Konermann, S., & Giegerich, R., 2008. Two interactive bioinformatics courses at the bielefeld university bioinformatics server. BRIEFINGS IN BIOINFORMATICS, 9(3), p 243-249.

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• [70]
  

  2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588308

  Giegerich, R., et al., 2008. The BREW workshop series: a stimulating experience in PhD education. Briefings in Bioinformatics, 9(3), p 250-253.

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• [69]
  

  2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1783357

  Theis, C., Reeder, J., & Giegerich, R., 2008. KnotInFrame: prediction of –1 ribosomal frameshift events. Nucleic Acids Research, 36(18), p 6013-6020.

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [68]
  

  2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1893917

  Janssen, S., Reeder, J., & Giegerich, R., 2008. Shape based indexing for faster search of RNA family databases. BMC Bioinformatics, 9(1), p 131.

  PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
   
• [67]
  

  2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1593132

  Reeder, J., Reeder, J., & Giegerich, R., 2007. Locomotif: from graphical motif description to RNA motif search. In Bioinformatics. Bioinformatics. no.23 OXFORD UNIV PRESS, pp. I392-I400.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [66]
  

  2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383428

  Brabrand, C., Giegerich, R., & Moeller, A., 2007. Analyzing Ambiguity of Context-Free Grammars. In J. Holub & J. Žďárek, eds. Implementation and Application of Automata. 12th International Conference, CIAA 2007, July 16-18, 2007, Revised Selected Papers. Lecture Notes in Computer Science, 4783. Springer.

  PUB | DOI
   
• [65]
  

  2007 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383462

  Hartmeier, S., Krüger, J., & Giegerich, R., 2007. Webservices and Workflows on the Bielefeld Bioinformatics Server: Practices and Problems. In Proceedings.

  PUB
   
• [64]
  

  2007 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1587974

  Reeder, J., Steffen, P., & Giegerich, R., 2007. pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows. NUCLEIC ACIDS RESEARCH, 35(Web Server), p W320-W324.

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• [63]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773864

  Beckstette, M., et al., 2006. Fast index based algorithms and software for matching position specific scoring matrices. BMC Bioinformatics, 7(1): 389.

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• [62]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1597065

  Baake, M., Grimm, U., & Giegerich, R., 2006. Surprises in approximating Levenshtein distances. JOURNAL OF THEORETICAL BIOLOGY, 243(2), p 279-282.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [61]
  

  2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383464

  Giegerich, R., & Steffen, P., 2006. Challenges in the Compilation of a Domain Specific Language for Dynamic Programming. In Proceedings of te 2006 ACM Symposium on Applied Computing.

  PUB
   
• [60]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1902179

  Gerlach, W., & Giegerich, R., 2006. GUUGle: a utility for fast exact matching under RNA complementary rules including G-U base pairing. Bioinformatics, 22(6), p 762-764.

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• [59]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1946336

  Höchsmann, T., Höchsmann, M., & Giegerich, R., 2006. Thermodynamic matchers: strengthening the significance of RNA folding energies. Comput Syst Bioinformatics Conf, , p 111-121.

  PUB | DOI | PubMed | Europe PMC
   
• [58]
  

  2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383518

  Reeder, J., & Giegerich, R., 2006. A graphical programming system for molecular motif search. In Proceedings of the 5th International Conference on Generative Programming and Component Engineering. ACM Press, pp. 131-140.

  PUB
   
• [57]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773871

  Seibel, P.N., et al., 2006. XML schemas for common bioinformatic data types and their application in workflow systems. BMC Bioinformatics, 7(1): 490.

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• [56]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1600726

  Malde, K., & Giegerich, R., 2006. Calculating PSSM probabilities with lazy dynamic programming. Jornal of Functional Programming, 16(01), p 75-81.

  PUB | DOI | WoS
   
• [55]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773640

  Steffen, P., & Giegerich, R., 2006. Correction: Versatile and declarative dynamic programming using pair algebras. BMC Bioinformatics, 7(1): 214.

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• [54]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1597805

  Steffen, P., & Giegerich, R., 2006. Table design in dynamic programming. INFORMATION AND COMPUTATION, 204(9), p 1325-1345.

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• [53]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1600421

  Steffen, P., et al., 2006. RNAshapes: an integrated RNA analysis package based on abstract shapes. Bioinformatics, 22(4), p 500-503.

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• [52]
  

  2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773637

  Voß, B., Giegerich, R., & Rehmsmeier, M., 2006. Complete probabilistic analysis of RNA shapes. BMC Biology, 4(1): 5.

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• [51]
  

  2006 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1598807

  Reeder, J., et al., 2006. Beyond Mfold: recent advances in RNA bioinformatics. In Journal of Biotechnology. JOURNAL OF BIOTECHNOLOGY. no.124 ELSEVIER SCIENCE BV, pp. 41-55.

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• [50]
  

  2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773613

  Sczyrba, A., et al., 2005. XenDB: Full length cDNA prediction and cross species mapping in Xenopus laevis. BMC Genomics, 6(1): 123.

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• [49]
  

  2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1602431

  Reeder, J., & Giegerich, R., 2005. Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction. BIOINFORMATICS, 21(17), p 3516-3523.

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• [48]
  

  2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773595

  Reeder, J., Steffen, P., & Giegerich, R., 2005. Effective ambiguity checking in biosequence analysis. BMC Bioinformatics, 6(1): 153.

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• [47]
  

  2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773598

  Steffen, P., & Giegerich, R., 2005. Versatile and declarative dynamic programming using pair algebras. BMC Bioinformatics, 6(1): 224.

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [46]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383529

  Beckstette, M., et al., 2004. Genlight: Interactive high-throughput sequence analysis and comparative genomics. Journal of Integrative Bioinformatics, 1(1), p 90-107.

  PUB | DOI
   
• [45]
  

  2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383561

  Sczyrba, A., et al., 2004. Identification of 10,500 Xenopus laevis Full Length Clones through EST Clustering and Sequence Analysis. In R. Giegerich & J. Stoye, eds. German Conference on Bioinformatics 2004 : GCB 2004, October 4 - 6, 2004, Bielefeld, Germany . GI-Edition / Proceedings. no.53 Bonn: Gesellschaft für Informatik, pp. 6-7.

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• [44]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607394

  Krüger, J., et al., 2004. e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences. NUCLEIC ACIDS RESEARCH, 32(Web Server), p W301-W304.

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• [43]
  

  2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383543

  Beckstette, M., et al., 2004. PoSSuMsearch: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays. In Proceedings of the German Conference on Bioinformatics. Lecture Notes in Informatics: GI, pp. 53-64.

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• [42]
  

  2004 | Konferenzband | Veröffentlicht | PUB-ID: 1918823

  R. Giegerich & J. Stoye, eds., 2004. Proceedings of the German Conference on Bioinformatics, GCB 2004. Lecture Notes in Informatics, P-53, p 234.

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• [41]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1606377

  Rehmsmeier, M., et al., 2004. Fast and effective prediction of microRNA/target duplexes. RNA-A PUBLICATION OF THE RNA SOCIETY, 10(10), p 1507-1517.

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• [40]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1606822

  Choudhuri, J.V., et al., 2004. GenAlyzer: interactive visualization of sequence similarities between entire genomes. BIOINFORMATICS, 20(12), p 1964-1965.

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• [39]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607419

  Voss, B., Meyer, C., & Giegerich, R., 2004. Evaluating the predictability of conformational switching in RNA. Bioinformatics, 20(10), p 1573-1582.

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• [38]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607656

  Giegerich, R., Meyer, C., & Steffen, P., 2004. A discipline of dynamic programming over sequence data. SCIENCE OF COMPUTER PROGRAMMING, 51(3), p 215-263.

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• [37]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1606393

  Giegerich, R., Voss, B., & Rehmsmeier, M., 2004. Abstract shapes of RNA. Nucleic Acids Research, 32(16), p 4843-4851.

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• [36]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773758

  Reeder, J., & Giegerich, R., 2004. Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. BMC Bioinformatics, 5(1): 104.

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• [35]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773747

  Gardner, P.P., & Giegerich, R., 2004. A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics, 5(1): 140.

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• [34]
  

  2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1600293

  Höchsmann, M., Voss, B., & Giegerich, R., 2004. Pure multiple RNA secondary structure alignments: A progressive profile approach. IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATIOCS, 1(1), p 53-62.

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• [33]
  

  2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773844

  Sczyrba, A., et al., 2003. RNA-related tools on the Bielefeld Bioinformatics Server. Nucleic Acids Research, 31(13), p 3767-3770.

  PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
   
• [32]
  

  2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383602

  Dress, A., et al., 2003. Fibonacci-Cayley-numbers and Repetition Pattern in Genomic DNA. Annals of Combinatorics, , p 259-279.

  PUB
   
• [31]
  

  2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1918949

  Giegerich, R., & Stoye, J., 2003. Finden, fast ohne zu suchen: Indexstrukturen in der Bioinformatik. Forschung an der Universität Bielefeld, 26, p 63-68.

  PUB
   
• [30]
  

  2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1610397

  Giegerich, R., Kurtz, S., & Stoye, J., 2003. Efficient implementation of lazy suffix trees. SOFTWARE-PRACTICE & EXPERIENCE, 33(11), p 1035-1049.

  PUB | PDF | DOI | WoS
   
• [29]
  

  2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773880

  Meyer, F., et al., 2003. GenDB - an open source genome annotation system for prokaryote genomes. Nucleic Acids Research, 31(8), p 2187-2195.

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• [28]
  

  2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1666680

  Höchsmann, M., et al., 2003. Local similarity in RNA secondary structures. Proc IEEE Comput Soc Bioinform Conf, 2, p 159-168.

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• [27]
  

  2002 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383608

  Giegerich, R., & Meyer, C., 2002. Algebraic Dynamic Programming. In Algebraic Methodology and Software Technology. Springer, pp. 349-364.

  PUB
   
• [26]
  

  2002 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1614870

  Meyer, C., & Giegerich, R., 2002. Matching and significance evaluation of combined sequence-structure motifs in RNA. ZEITSCHRIFT FÜR PHYSIKALISCHE CHEMIE-INTERNATIONAL JOURNAL OF RESEARCH IN PHYSICAL CHEMISTRY & CHEMICAL PHYSICS, 216(2/2002), p 193-216.

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• [25]
  

  2002 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1615366

  Goesmann, A., et al., 2002. PathFinder: reconstruction and dynamic visualization of metabolic pathways. BIOINFORMATICS, 18(1), p 124-129.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [24]
  

  2002 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1612812

  Giegerich, R., & Steffen, P., 2002. Implementing algebraic dynamic programming in the functional and the imperative programming paradigm. In E. Boiten, ed. MATHEMATICS OF PROGRAM CONSTRUCTION. Lecture Notes in Computer Science. no.2386 Berlin ; Heidelberg ; New York ; Barcelona ; Hong Kong ; London ; Milan ; Paris ; Tokyo: SPRINGER-VERLAG BERLIN, pp. 1-20.

  PUB | WoS
   
• [23]
  

  2001 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383615

  Evers, D., & Giegerich, R., 2001. Reducing the Conformation Space in RNA Structure Prediction. In Proceedings of the German Conference on Bioinformatics. pp. 118-124.

  PUB
   
• [22]
  

  2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1615460

  Fuellen, G., Wägele, J.W., & Giegerich, R., 2001. Best systematist practice transferred to molecular data. ORGANISMS DIVERSITY & EVOLUTION, 1(4), p 257-272.

  PUB | DOI | WoS
   
• [21]
  

  2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1615572

  Fuellen, G., Wägele, J.W., & Giegerich, R., 2001. Minimum conflict: a divide-and-conquer approach to phylogeny estimation. BIOINFORMATICS, 17(12), p 1168-1178.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [20]
  

  2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773335

  Kurtz, S., et al., 2001. REPuter: the manifold applications of repeat analysis on a genomic scale. Nucleic Acids Research, 29(22), p 4633-4642.

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• [19]
  

  2000 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383618

  Giegerich, R., & Evers, D., 2000. Bioinformatik: Jäger, Sammler und Forscher im Daten-Dschungel der Molekularbiologie. BIOforum, 1-2, p 30-32.

  PUB
   
• [18]
  

  2000 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1618572

  Giegerich, R., 2000. Explaining and controlling ambiguity in dynamic programming. In R. Giancarlo & D. Sankoff, eds. Combinatorial Pattern Matching. 11th Annual Symposium CPM 2000, Proceedings. Lecture Notes in Computer Science. no.1848 Berlin: Springer, pp. 46-59.

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• [17]
  

  2000 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1618574

  Giegerich, R., 2000. A systematic approach to dynamic programming in bioinformatics. BIOINFORMATICS, 16(8), p 665-677.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [16]
  

  2000 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1918988

  Kurtz, S., et al., 2000. Computation and Visualization of Degenerate Repeats in Complete Genomes. In Proc. of ISMB 2000. pp. 228-238.

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• [15]
  

  1999 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1947682

  Giegerich, R., Haase, D., & Rehmsmeier, M., 1999. Prediction and visualization of structural switches in RNA. Pac Symp Biocomput, , p 126-137.

  PUB | PubMed | Europe PMC
   
• [14]
  

  1999 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1620435

  Giegerich, R., Kurtz, S., & Stoye, J., 1999. Efficient implementation of lazy suffix trees. In Algorithm Engineering. 3rd International Workshop, WAE’99 London, UK, July 19–21, 1999 Proceedings. LNCS. no.1668 pp. 30-42.

  PUB | DOI | WoS
   
• [13]
  

  1999 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1623374

  Evers, D.J., & Giegerich, R., 1999. RNA movies: visualizing RNA secondary structure spaces. BIOINFORMATICS, 15(1), p 32-37.

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [12]
  

  1998 | Konferenzbeitrag | PUB-ID: 1883741

  Lorenz, D., & Giegerich, R., 1998. ViSeL: An interactive Virtual Laboratory for DNA Sequencing. In Tagungsband zum Workshop "Multimedia-Systeme" im Rahmen der GI-Jahrestagung 1998. Magdeburg, pp. 53-65.

  PUB
   
• [11]
  

  1997 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383634

  Fuellen, G., & Giegerich, R., 1997. International, interdisziplinär und interaaktiv: Der VSNS-Kurs über BioComputing. In Proceedings: Virtueller Campus. pp. 77-89.

  PUB
   
• [10]
  

  1997 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1627522

  Giegerich, R., & Kurtz, S., 1997. From Ukkonen to McCreight and Weiner: A unifying view of linear-time suffix tree construction. ALGORITHMICA, 19(3), p 331-353.

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• [9]
  

  1996 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1639486

  Grüner, W., et al., 1996. Analysis of RNA sequence structure maps by exhaustive enumeration .2. structures of neutral networks and shape space covering. Monatshefte für Chemie, 127(4), p 375-389.

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• [8]
  

  1996 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1639477

  Grüner, W., et al., 1996. Analysis of RNA sequence structure maps by exhaustive enumeration .1. Neutral networks. Monatshefte für Chemie, 127(4), p 355-374.

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• [7]
  

  1996 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1947921

  Giegerich, R., Meyer, F., & Schleiermacher, C., 1996. GeneFisher--software support for the detection of postulated genes. Proc Int Conf Intell Syst Mol Biol, 4, p 68-77.

  PUB | PubMed | Europe PMC
   
• [6]
  

  1995 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1628987

  Giegerich, R., & Kurtz, S., 1995. A comparison of imperative and purely functional suffix tree constructions. In Science of Computer Programming. SCIENCE OF COMPUTER PROGRAMMING. no.25 ELSEVIER SCIENCE BV, pp. 187-218.

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• [5]
  

  1995 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1639513

  Bütow, B., et al., 1995. A new calculus for semantic matching. In M. Hermenegildo & S. D. Swierstra, eds. Programming languages: implementations, logics and programs. 7th international symposium ; proceedings. Lecture Notes in Computer Science. no.982 Berlin: Springer, pp. 81-96.

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• [4]
  

  1992 | Report | PUB-ID: 2383632

  Giegerich, R., 1992. Embedding Sequence Analysis in the Functional Programming Paradigm - A Feasability Study, Report No. 8, Universität Bielefeld: Technische Fakultät.

  PUB
   
• [3]
  

  1991 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383627

  Giegerich, R., & Ohlebusch, E., 1991. An Implicit Representation of Infinite Sequences of Terms. Bulletin of the EATCS, 43, p 174-182.

  PUB
   
• [2]
  

  1990 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1651134

  Giegerich, R., 1990. CODE SELECTION BY INVERSION OF ORDER-SORTED DERIVORS. In Theoretical Computer Science. THEORETICAL COMPUTER SCIENCE. no.73 ELSEVIER SCIENCE BV, pp. 177-211.

  PUB | DOI | WoS
   
• [1]
  

  1990 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1651466

  Giegerich, R., 1990. ON THE STRUCTURE OF VERIFIABLE CODE GENERATOR SPECIFICATIONS. SIGPLAN NOTICES, 25(6), p 1-8.

  PUB | WoS