World's Best Scientists 2026 revealed!

D-Index & Metrics

Computer Science

D-Index
31
Citations
17712
World Ranking
13323
National Ranking
640

Overview

Stefan Kurtz is affiliated with Universität Hamburg in Germany and works primarily in the field of Biochemistry, Genetics and Molecular Biology. Their research spans several subfields including Molecular Biology, Cancer Research, Reproductive Medicine, and Oncology.

The scientist's work focuses on topics such as RNA and protein synthesis mechanisms, protein structure and dynamics, machine learning applications in bioinformatics, genomics and phylogenetic studies, RNA research and splicing, and cancer genomics and diagnostics with particular attention to ovarian cancer diagnosis and treatment.

Stefan Kurtz has published several papers addressing diverse aspects of molecular biology and computational biology. Selected recent publications include:

  • Transcription factor prediction using protein 3D secondary structures (2024, Bioinformatics)
  • DeepGRP: engineering a software tool for predicting genomic repetitive elements using Recurrent Neural Networks with attention (2021, Algorithms for Molecular Biology)
  • The power and limits of predicting exon-exon interactions using protein 3D structures (2024, bioRxiv - Cold Spring Harbor Laboratory)
  • Loss of copy numbers of retrotransposons (HERVK) on chromosome 7p11.2 impacts EGFR (Epidermal Growth Factor Receptor)-induced phenotypes for platinum sensitivity and long-term survival in ovarian cancer-A study from the OVCAD consortium (2024, International Journal of Cancer)
  • OmixLitMiner 2: Guided Literature Mining Tools for Automated Categorization of Marker Candidates in Omics Studies (2025, bioRxiv - Cold Spring Harbor Laboratory)

The venues where Kurtz frequently publishes include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Bioinformatics
  • Algorithms for Molecular Biology
  • International Journal of Cancer
  • PROTEOMICS

Among frequent collaborators, Stefan Kurtz has coauthored works with Jeanine Liebold, Jan Baumbach, Khalique Newaz, F. Neuhaus, and Janina Geiser.

Best Publications

  • Versatile and open software for comparing large genomes

    Stefan Kurtz;Adam Phillippy;Arthur L Delcher;Michael Smoot

  • REPuter: the manifold applications of repeat analysis on a genomic scale.

    Stefan Kurtz;Jomuna V. Choudhuri;Enno Ohlebusch;Chris Schleiermacher

  • LTRharvest , an efficient and flexible software for de novo detection of LTR retrotransposons

    David Ellinghaus;Stefan Kurtz;Ute Willhoeft

  • Replacing suffix trees with enhanced suffix arrays

    Mohamed Ibrahim Abouelhoda;Stefan Kurtz;Enno Ohlebusch

  • Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures

    Steve Hoffmann;Christian Otto;Stefan Kurtz;Cynthia Mira Sharma

  • REPuter: fast computation of maximal repeats in complete genomes.

    Stefan Kurtz;Chris Schleiermacher

  • Reducing the space requirement of suffix trees

    Stefan Kurtz

  • GenomeTools: A Comprehensive Software Library for Efficient Processing of Structured Genome Annotations

    Gordon Gremme;Sascha Steinbiss;Stefan Kurtz

  • Engineering a software tool for gene structure prediction in higher organisms

    Gordon Gremme;Volker Brendel;Michael E. Sparks;Stefan Kurtz

  • Fine-grained annotation and classification of de novo predicted LTR retrotransposons

    Sascha Steinbiss;Ute Willhoeft;Gordon Gremme;Stefan Kurtz

  • Local similarity in RNA secondary structures

    M. Hochsmann;T. Toller;R. Giegerich;S. Kurtz

  • A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes

    Stefan Kurtz;Apurva Narechania;Apurva Narechania;Joshua C Stein;Doreen Ware

  • From Ukkonen to McCreight and Weiner: A Unifying View of Linear-Time Suffix Tree Construction

    Robert Giegerich;Stefan Kurtz

  • Efficient multiple genome alignment.

    Michael Höhl;Stefan Kurtz;Enno Ohlebusch

  • Efficient implementation of lazy suffix trees

    Robert Giegerich;Stefan Kurtz;Jens Stoye

  • Fast index based algorithms and software for matching position specific scoring matrices

    Michael Beckstette;Robert Homann;Robert Giegerich;Stefan Kurtz

  • The Enhanced Suffix Array and Its Applications to Genome Analysis

    Mohamed Ibrahim Abouelhoda;Stefan Kurtz;Enno Ohlebusch

  • Optimal Exact Strring Matching Based on Suffix Arrays

    Mohamed Ibrahim Abouelhoda;Enno Ohlebusch;Stefan Kurtz

  • An applications-focused review of comparative genomics tools: capabilities, limitations and future challenges.

    Patrick Chain;Stefan Kurtz;Enno Ohlebusch;Tom Slezak

  • Optimal exact string matching based on suffix arrays

    Mohamed Ibrahim Abouelhoda;Enno Ohlebusch;Stefan Kurtz

  • Universal data compression based on the Burrows-Wheeler transformation: theory and practice

    B. Balkenhol;S. Kurtz

Frequent Co-Authors

Robert Giegerich
Robert Giegerich Bielefeld University
Jens Stoye
Jens Stoye Bielefeld University
Volker Brendel
Volker Brendel Indiana University
Malik Alawi
Malik Alawi University Medical Center Hamburg-Eppendorf
Axel Schippers
Axel Schippers Federal Institute for Geosciences and Natural Resources
Stéphane Hourdez
Stéphane Hourdez Sorbonne University
Ewan Birney
Ewan Birney European Molecular Biology Laboratory
David Ellinghaus
David Ellinghaus Kiel University
Paul Flicek
Paul Flicek The Jackson Laboratory
Martijn A. Huynen
Martijn A. Huynen Radboud University Medical Center

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