Evolutionary search for low autocorrelated binary sequences. - Burkhard Militzer; Michele Zamparelli; Dieter Beule (IEEE Trans. Evol. Comput., 1998)

Mutual Information Analysis of Surrogate Gene Expression Data. - Dirk Holste; Dieter Beule; Wolfram Liebermeister; Johannes Schuchhardt; Hanspeter Herzel (German Conference on Bioinformatics, 1999)

Reliability of Microarray Data and Clustering. - Dieter Beule; Johannes Schuchhardt; Arif Malik; Holger Eickhoff; Hans Lehrach; Hanspeter Herzel (German Conference on Bioinformatics, 2000)

Finding Transcription Factor Binding Sites in Coregulated Genes by Exhaustive Sequence Search. - Szymon M. Kielbasa; Jan O. Korbel; Dieter Beule; Johannes Schuchhardt; Hanspeter Herzel (German Conference on Bioinformatics, 2000)

Combining frequency and positional information to predict transcription factor binding sites. - Szymon M. Kielbasa; Jan O. Korbel; Dieter Beule; Johannes Schuchhardt; Hanspeter Herzel (Bioinform., 2001)

Biomarker Discovery and Redundancy Reduction towards Classification using a Multi-factorial MALDI-TOF MS T2DM Mouse Model Dataset. - Chris Bauer; Frank Kleinjung; Celia J. Smith; Mark W. Towers; Ali Tiss; Alexandra Chadt; Tanja Dreja; Dieter Beule; Hadi Al-Hasani; Knut Reinert; Johannes Schuchhardt; Rainer Cramer (BMC Bioinform., 2011)

VCFPy: a Python 3 library with good support for both reading and writing VCF. - Manuel Holtgrewe; Dieter Beule (J. Open Source Softw., 2016)

HLA-MA: simple yet powerful matching of samples using HLA typing results. - Clemens Messerschmidt; Manuel Holtgrewe; Dieter Beule (Bioinform., 2017)

SigsPack, a package for cancer mutational signatures. - Franziska Schumann; Eric Blanc; Clemens Messerschmidt; Thomas Blankenstein; Antonia Busse; Dieter Beule (BMC Bioinform., 2019)

AltamISA: a Python API for ISA-Tab files. - Mathias Kuhring; Mikko Nieminen; Jennifer Kirwan; Dieter Beule; Manuel Holtgrewe (J. Open Source Softw., 2019)

DigestiFlow: from BCL to FASTQ with ease. - Manuel Holtgrewe; Clemens Messerschmidt; Mikko Nieminen; Dieter Beule (Bioinform., 2020)

Portability of Scientific Workflows in NGS Data Analysis: A Case Study. - Christopher Schiefer; Marc Bux; Jörgen Brandt; Clemens Messerschmidt; Knut Reinert; Dieter Beule; Ulf Leser (CoRR, 2020)

SODAR Core: a Django-based framework for scientific data management and analysis web apps. - Mikko Nieminen; Oliver Stolpe; Franziska Schumann; Manuel Holtgrewe; Dieter Beule (J. Open Source Softw., 2020)

VarFish: comprehensive DNA variant analysis for diagnostics and research. - Manuel Holtgrewe; Oliver Stolpe; Mikko Nieminen; Stefan Mundlos; Alexej Knaus; Uwe Kornak; Dominik Seelow; Lara Segebrecht; Malte Spielmann; Björn Fischer-Zirnsak; Felix Boschann; Ute Scholl; et al. (Nucleic Acids Res., 2020)

Neuroblastoma signalling models unveil combination therapies targeting feedback-mediated resistance. - Mathurin Dorel; Bertram Klinger; Tommaso Mari; Joern Toedling; Eric Blanc; Clemens Messerschmidt; Michal Nadler-Holly; Matthias Ziehm; Anja Sieber; Falk Hertwig; Dieter Beule; Angelika Eggert; et al. (PLoS Comput. Biol., 2021)

ClearCNV: CNV calling from NGS panel data in the presence of ambiguity and noise. - Vinzenz May; Leonard Koch; Björn Fischer-Zirnsak; Denise Horn; Petra Gehle; Uwe Kornak; Dieter Beule; Manuel Holtgrewe (Bioinform., 2022)