Stefan Kurtz

ORCID

Publication Activity (10 Years)

Years Active: 1994-2021
Publications (10 Years): 3

Top Venues

Bioinform.

IEEE ACM Trans. Comput. Biol. Bioinform.

BMC Bioinform.

J. Clin. Bioinform.

Bielefeld University, Germany (PHD)

Education History

Bielefeld University, Germany

PHD

Publications

Fabian Hausmann, Stefan Kurtz
DeepGRP: engineering a software tool for predicting genomic repetitive elements using Recurrent Neural Networks with attention. Algorithms Mol. Biol. 16 (1) (2021)
Giorgio Gonnella, Niklas Niehus, Stefan Kurtz
GfaViz: flexible and interactive visualization of GFA sequence graphs. Bioinform. 35 (16) (2019)
Giorgio Gonnella, Stefan Kurtz
GfaPy: a flexible and extensible software library for handling sequence graphs in Python. Bioinform. 33 (19) (2017)
Malte Mader, Ronald Simon, Stefan Kurtz
FISH Oracle 2: a web server for integrative visualization of genomic data in cancer research. J. Clin. Bioinform. 4 (2014)
Gordon Gremme, Sascha Steinbiss, Stefan Kurtz
GenomeTools: A Comprehensive Software Library for Efficient Processing of Structured Genome Annotations. IEEE ACM Trans. Comput. Biol. Bioinform. 10 (3) (2013)
Fernando Meyer, Stefan Kurtz, Michael Beckstette
Fast online and index-based algorithms for approximate search of RNA sequence-structure patterns. BMC Bioinform. 14 (2013)
Giorgio Gonnella, Stefan Kurtz
Readjoiner: a fast and memory efficient string graph-based sequence assembler. BMC Bioinform. 13 (2012)
Sascha Steinbiss, Stefan Kurtz
A New Efficient Data Structure for Storage and Retrieval of Multiple Biosequences. IEEE ACM Trans. Comput. Biol. Bioinform. 9 (2) (2012)
Malik Alawi, Stefan Kurtz, Michael Beckstette
CASSys: an integrated software-system for the interactive analysis of ChIP-seq data. J. Integr. Bioinform. 8 (2) (2011)
Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebastian Will, Michael Beckstette
Structator: fast index-based search for RNA sequence-structure patterns. BMC Bioinform. 12 (2011)
Malte Mader, Ronald Simon, Sascha Steinbiss, Stefan Kurtz
FISH Oracle: a web server for flexible visualization of DNA copy number data in a genomic context. J. Clin. Bioinform. 1 (2011)
Michael Beckstette, Robert Homann, Robert Giegerich, Stefan Kurtz
Significant speedup of database searches with HMMs by search space reduction with PSSM family models. Bioinform. 25 (24) (2009)
Sascha Steinbiss, Gordon Gremme, Christin Schärfer, Malte Mader, Stefan Kurtz
: a genome annotation drawing library. Bioinform. 25 (4) (2009)
Steve Hoffmann, Christian Otto, Stefan Kurtz, Cynthia M. Sharma, Philipp Khaitovich, Jörg Vogel, Peter F. Stadler, Jörg Hackermüller
Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures. PLoS Comput. Biol. 5 (9) (2009)
David Ellinghaus, Stefan Kurtz, Ute Willhoeft
detection of LTR retrotransposons. BMC Bioinform. 9 (2008)
Julia Herold, Stefan Kurtz, Robert Giegerich
Efficient computation of absent words in genomic sequences. BMC Bioinform. 9 (2008)
Enno Ohlebusch, Stefan Kurtz
Space Efficient Computation of Rare Maximal Exact Matches between Multiple Sequences. J. Comput. Biol. 15 (4) (2008)
Mohamed Ibrahim Abouelhoda, Stefan Kurtz, Enno Ohlebusch
CoCoNUT: an efficient system for the comparison and analysis of genomes. BMC Bioinform. 9 (2008)
Fiona G. G. Nielsen, Stefan Gräf, Xinmin Zhang, Stefan Kurtz, Sergei Denissov, Roland Green, Ewan Birney, Paul Flicek, Martijn A. Huynen, Henk Stunnenberg
Optimising oligonucleotide array design for ChIP-on-chip. BMC Bioinform. 8 (S-8) (2007)
Stefan Gräf, Fiona G. G. Nielsen, Stefan Kurtz, Martijn A. Huynen, Ewan Birney, Henk Stunnenberg, Paul Flicek
Optimized design and assessment of whole genome tiling arrays. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Michael Beckstette, Robert Homann, Robert Giegerich, Stefan Kurtz
Fast index based algorithms and software for matching position specific scoring matrices. BMC Bioinform. 7 (2006)
Gordon Gremme, Volker Brendel, Michael E. Sparks, Stefan Kurtz
Engineering a software tool for gene structure prediction in higher organisms. Inf. Softw. Technol. 47 (15) (2005)
Mohamed Ibrahim Abouelhoda, Stefan Kurtz, Enno Ohlebusch
Replacing suffix trees with enhanced suffix arrays. J. Discrete Algorithms 2 (1) (2004)
Michael Beckstette, Dirk Strothmann, Robert Homann, Robert Giegerich, Stefan Kurtz
: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays. German Conference on Bioinformatics (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 Res. 32 (Web-Server-Issue) (2004)
Jomuna V. Choudhuri, Chris Schleiermacher, Stefan Kurtz, Robert Giegerich
GenAlyzer: interactive visualization of sequence similarities between entire genomes. Bioinform. 20 (12) (2004)
Alexander Sczyrba, Jan Krüger, Henning Mersch, Stefan Kurtz, Robert Giegerich
RNA-related tools on the Bielefeld Bioinformatics Server. Nucleic Acids Res. 31 (13) (2003)
Robert Giegerich, Stefan Kurtz, Jens Stoye
Efficient implementation of lazy suffix trees. Softw. Pract. Exp. 33 (11) (2003)
Matthias Höchsmann, Thomas Töller, Robert Giegerich, Stefan Kurtz
Local Similarity in RNA Secondary Structures. CSB (2003)
Patrick Chain, Stefan Kurtz, Enno Ohlebusch, Tom Slezak
An Applications-focused Review of Comparative Genomics Tools: Capabilities, Limitations and Future Challenges. Briefings Bioinform. 4 (2) (2003)
Mohamed Ibrahim Abouelhoda, Stefan Kurtz, Enno Ohlebusch
The Enhanced Suffix Array and Its Applications to Genome Analysis. WABI (2002)
J. Patrick Fitch, Shea N. Gardner, Thomas A. Kuczmarski, Stefan Kurtz, Rich Myers, Linda L. Ott, Thomas R. Slezak, Elizabeth A. Vitalis, Adam T. Zemla, Paula M. McCready
Rapid development of nucleic acid diagnostics. Proc. IEEE 90 (11) (2002)
Mohamed Ibrahim Abouelhoda, Enno Ohlebusch, Stefan Kurtz
Optimal Exact Strring Matching Based on Suffix Arrays. SPIRE (2002)
Michael Höhl, Stefan Kurtz, Enno Ohlebusch
Efficient multiple genome alignment. ISMB (2002)
Stefan Gräf, Dirk Strothmann, Stefan Kurtz, Gerhard Steger
HyPaLib: a database of RNAs and RNA structural elements defined by hybrid patterns. Nucleic Acids Res. 29 (1) (2001)
Bernhard Balkenhol, Stefan Kurtz
Universal Data Compression Based on the Burrows-Wheeler Transformation: Theory and Practice. IEEE Trans. Computers 49 (10) (2000)
Stefan Kurtz, Enno Ohlebusch, Chris Schleiermacher, Jens Stoye, Robert Giegerich
Computation and Visualization of Degenerate Repeats in Complete Genomes. ISMB (2000)
Stefan Kurtz
Reducing the space requirement of suffix trees. Softw. Pract. Exp. 29 (13) (1999)
Robert Giegerich, Stefan Kurtz, Jens Stoye
Efficient Implementation of Lazy Suffix Trees. WAE (1999)
Stefan Kurtz, Chris Schleiermacher
REPuter: fast computation of maximal repeats in complete genomes. Bioinform. 15 (5) (1999)
Bernhard Balkenhol, Stefan Kurtz, Yuri M. Shtarkov
Modifications of the Burrows and Wheeler Data Compression Algorithm. Data Compression Conference (1999)
Stefan Kurtz, Gene Myers
Estimating the Probability of Approximate Matches. CPM (1997)
Robert Giegerich, Stefan Kurtz
From Ukkonen to McCreight and Weiner: A Unifying View of Linear-Time Suffix Tree Construction. Algorithmica 19 (3) (1997)
Robert Giegerich, Stefan Kurtz
A Comparison of Imperative and Purely Functional Suffix Tree Constructions. Sci. Comput. Program. 25 (2-3) (1995)
Robert Giegerich, Stefan Kurtz
Suffix Trees in the Functional Programming Paradigm. ESOP (1994)

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Publication Activity (10 Years)

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Stefan Kurtz