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Robert Giegerich

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Georg Sauthoff; Stefan Janssen; Mathias Möhl; Robert Giegerich
Bellman's GAP--a language and compiler for dynamic programming in sequence analysis.
Jan-Philip Schlüter; Melanie J Barnett; Robert Giegerich; Elizaveta Krol; Claus Lang; Sharon R Long; Jan Reinkensmeier; Anke Becker
Global mapping of transcription start sites and promoter motifs in the symbiotic α-proteobacterium Sinorhizobium meliloti 1021.
Mohamed El-Kalioby; Robert Giegerich; Jan Krüger; Alexander Sczyrba; Mohamed Abouelhoda; Dennis P Wall; Peter Tonellato
Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.

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All Publications

2013: Georg Sauthoff; Stefan Janssen; Mathias Möhl; Robert Giegerich
Bellman's GAP--a language and compiler for dynamic programming in sequence analysis.
Bioinformatics (Oxford, England) 2013;29(5):551-60.
2013: Jan-Philip Schlüter; Melanie J Barnett; Robert Giegerich; Elizaveta Krol; Claus Lang; Sharon R Long; Jan Reinkensmeier; Anke Becker
Global mapping of transcription start sites and promoter motifs in the symbiotic α-proteobacterium Sinorhizobium meliloti 1021.
BMC genomics 2013;14():156.
2012: Mohamed El-Kalioby; Robert Giegerich; Jan Krüger; Alexander Sczyrba; Mohamed Abouelhoda; Dennis P Wall; Peter Tonellato
Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.
BMC bioinformatics 2012;13 Suppl 17():S22.
2011: Burkhard Linke; Robert Giegerich; Alexander Goesmann
Conveyor: a workflow engine for bioinformatic analyses.
Bioinformatics (Oxford, England) 2011;27(7):903-11.
2011: Robert Giegerich; Christian Höner zu Siederdissen
Semantics and ambiguity of stochastic RNA family models.
IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM 2011;8(2):499-516.
2011: Stefan Janssen; Christian Schudoma; Gerhard Steger; Robert Giegerich
Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction.
BMC bioinformatics 2011;12():429.
2010: Stefan Janssen; Robert Giegerich
Faster computation of exact RNA shape probabilities.
Bioinformatics (Oxford, England) 2010;26(5):632-9.
2010: Mohamed Abouelhoda; Mohamed El-Kalioby; Robert Giegerich
WAMI: a web server for the analysis of minisatellite maps.
BMC evolutionary biology 2010;10():167.
2010: Andreas Bremges; Stefanie Schirmer; Robert Giegerich
Fine-tuning structural RNA alignments in the twilight zone.
BMC bioinformatics 2010;11():222.
2010: Jan-Philip Schlüter; Jan Reinkensmeier; Svenja Daschkey; Elena Evguenieva-Hackenberg; Stefan Janssen; Sebastian Jänicke; Jörg D Becker; Robert Giegerich; Anke Becker
A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti.
BMC genomics 2010;11():245.
2009: Michael Beckstette; Robert Homann; Robert Giegerich; Stefan Kurtz
Significant speedup of database searches with HMMs by search space reduction with PSSM family models.
Bioinformatics (Oxford, England) 2009;25(24):3251-8.
2009: Jens Reeder; Robert Giegerich
RNA secondary structure analysis using the RNAshapes package.
Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] 2009;Chapter 12():Unit12.8.
2009: Robert Homann; David Fleer; Robert Giegerich; Marc Rehmsmeier
mkESA: enhanced suffix array construction tool.
Bioinformatics (Oxford, England) 2009;25(8):1084-5.
2009: Mohamed I Abouelhoda; Robert Giegerich; Behshad Behzadi; Jean-Marc Steyaert
Alignment of minisatellite maps based on run-length encoding scheme.
Journal of bioinformatics and computational biology 2009;7(2):287-308.
2008: Corinna Theis; Jens Reeder; Robert Giegerich
KnotInFrame: prediction of -1 ribosomal frameshift events.
Nucleic acids research 2008;36(18):6013-20.
2008: Robert Giegerich; Alvis Brazma; Inge Jonassen; Esko Ukkonen; Martin Vingron
The BREW workshop series: a stimulating experience in PhD education.
Briefings in bioinformatics 2008;9(3):250-3.
2008: Alexander Sczyrba; Susanne Konermann; Robert Giegerich
Two interactive Bioinformatics courses at the Bielefeld University Bioinformatics Server.
Briefings in bioinformatics 2008;9(3):243-9.
2008: Anna-Lena Lamprecht; Tiziana Margaria; Bernhard Steffen; Alexander Sczyrba; Sven Hartmeier; Robert Giegerich
GeneFisher-P: variations of GeneFisher as processes in Bio-jETI.
BMC bioinformatics 2008;9 Suppl 4():S13.
2008: Julia Herold; Stefan Kurtz; Robert Giegerich
Efficient computation of absent words in genomic sequences.
BMC bioinformatics 2008;9():167.
2008: Stefan Janssen; Jens Reeder; Robert Giegerich
Shape based indexing for faster search of RNA family databases.
BMC bioinformatics 2008;9():131.
2007: Jens Reeder; Jens Reeder; Robert Giegerich
Locomotif: from graphical motif description to RNA motif search.
Bioinformatics (Oxford, England) 2007;23(13):i392-400.
2007: Jens Reeder; Peter Steffen; Robert Giegerich
pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows.
Nucleic acids research 2007;35(Web Server issue):W320-4.
2006: Michael Baake; Uwe Grimm; Robert Giegerich
Surprises in approximating Levenshtein distances.
Journal of theoretical biology 2006;243(2):279-82.
2006: Jens Reeder; Matthias Höchsmann; Marc Rehmsmeier; Björn Voss; Robert Giegerich
Beyond Mfold: recent advances in RNA bioinformatics.
Journal of biotechnology 2006;124(1):41-55.
2006: Wolfgang Gerlach; Robert Giegerich
GUUGle: a utility for fast exact matching under RNA complementary rules including G-U base pairing.
Bioinformatics (Oxford, England) 2006;22(6):762-4.
2006: Peter Steffen; Björn Voss; Marc Rehmsmeier; Jens Reeder; Robert Giegerich
RNAshapes: an integrated RNA analysis package based on abstract shapes.
Bioinformatics (Oxford, England) 2006;22(4):500-3.
2006: T Höchsmann; Matthias Höchsmann; Robert Giegerich
Thermodynamic matchers: strengthening the significance of RNA folding energies.
Computational systems bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference 2006;():111-21.
2006: Philipp N Seibel; Jan Krüger; Sven Hartmeier; Knut Schwarzer; Kai Löwenthal; Henning Mersch; Thomas Dandekar; Robert Giegerich
XML schemas for common bioinformatic data types and their application in workflow systems.
BMC bioinformatics 2006;7():490.
2006: Michael Beckstette; Robert Homann; Robert Giegerich; Stefan Kurtz
Fast index based algorithms and software for matching position specific scoring matrices.
BMC bioinformatics 2006;7():389.
2006: Björn Voss; Robert Giegerich; Marc Rehmsmeier
Complete probabilistic analysis of RNA shapes.
BMC biology 2006;4():5.
2005: Jens Reeder; Robert Giegerich
Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction.
Bioinformatics (Oxford, England) 2005;21(17):3516-23.
2005: Alexander Sczyrba; Michael Beckstette; Ali H Brivanlou; Robert Giegerich; Curtis R Altmann
XenDB: full length cDNA prediction and cross species mapping in Xenopus laevis.
BMC genomics 2005;6():123.
2005: Peter Steffen; Robert Giegerich
Versatile and declarative dynamic programming using pair algebras.
BMC bioinformatics 2005;6():224.
2005: Jens Reeder; Peter Steffen; Robert Giegerich
Effective ambiguity checking in biosequence analysis.
BMC bioinformatics 2005;6():153.
2004: Marc Rehmsmeier; Peter Steffen; Matthias Hochsmann; Robert Giegerich
Fast and effective prediction of microRNA/target duplexes.
RNA (New York, N.Y.) 2004;10(10):1507-17.
2004: Paul P Gardner; Robert Giegerich
A comprehensive comparison of comparative RNA structure prediction approaches.
BMC bioinformatics 2004;5():140.
2004: Jomuna V Choudhuri; Chris Schleiermacher; Stefan Kurtz; Robert Giegerich
GenAlyzer: interactive visualization of sequence similarities between entire genomes.
Bioinformatics (Oxford, England) 2004;20(12):1964-5.
2004: Jens Reeder; Robert Giegerich
Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics.
BMC bioinformatics 2004;5():104.
2004: Björn Voss; Carsten Meyer; Robert Giegerich
Evaluating the predictability of conformational switching in RNA.
Bioinformatics (Oxford, England) 2004;20(10):1573-82.
2004: Jan Krüger; Alexander Sczyrba; Stefan Kurtz; Robert Giegerich
e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences.
Nucleic acids research 2004;32(Web Server issue):W301-4.
2004: Matthias Höchsmann; Björn Voss; Robert Giegerich
Pure multiple RNA secondary structure alignments: a progressive profile approach.
IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM 2004;1(1):53-62.
2004: Robert Giegerich; Björn Voss; Marc Rehmsmeier
Abstract shapes of RNA.
Nucleic acids research 2004;32(16):4843-51.
2003: Alexander Sczyrba; Jan Krüger; Henning Mersch; Stefan Kurtz; Robert Giegerich
RNA-related tools on the Bielefeld Bioinformatics Server.
Nucleic acids research 2003;31(13):3767-70.
2003: Folker Meyer; Alexander Goesmann; Alice C McHardy; Daniela Bartels; Thomas Bekel; Jörn Clausen; Jörn Kalinowski; Burkhard Linke; Oliver Rupp; Robert Giegerich; Alfred Pühler
GenDB--an open source genome annotation system for prokaryote genomes.
Nucleic acids research 2003;31(8):2187-95.
2003: Matthias Höchsmann; Thomas Töller; Robert Giegerich; Stefan Kurtz
Local similarity in RNA secondary structures.
Proceedings / IEEE Computer Society Bioinformatics Conference. IEEE Computer Society Bioinformatics Conference 2003;2():159-68.
2002: Alexander Goesmann; Martin Haubrock; Folker Meyer; Jörn Kalinowski; Robert Giegerich
PathFinder: reconstruction and dynamic visualization of metabolic pathways.
Bioinformatics (Oxford, England) 2002;18(1):124-9.
2001: Stefan Kurtz; Jomuna V Choudhuri; Enno Ohlebusch; Chris Schleiermacher; Jens Stoye; Robert Giegerich
REPuter: the manifold applications of repeat analysis on a genomic scale.
Nucleic acids research 2001;29(22):4633-42.
2000: Robert Giegerich
A systematic approach to dynamic programming in bioinformatics.
Bioinformatics (Oxford, England) 2000;16(8):665-77.
2000: Stefan Kurtz; Enno Ohlebusch; Chris Schleiermacher; Jens Stoye; Robert Giegerich
Computation and visualization of degenerate repeats in complete genomes.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 2000;8():228-38.
1999: Robert Giegerich; D Haase; Marc Rehmsmeier
Prediction and visualization of structural switches in RNA.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1999;():126-37.
1999: Dirk J Evers; Robert Giegerich
RNA movies: visualizing RNA secondary structure spaces.
Bioinformatics (Oxford, England) 1999;15(1):32-7.