BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing. - Christoph Bock; Sabine Reither; Thomas Mikeska; Martina Paulsen; Jörn Walter; Thomas Lengauer (Bioinform., 2005)

CpG Island Mapping by Epigenome Prediction. - Christoph Bock; Jörn Walter; Martina Paulsen; Thomas Lengauer (PLoS Comput. Biol., 2007)

BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing. - Pavlo Lutsik; Lars Feuerbach; Julia Arand; Thomas Lengauer; Jörn Walter; Christoph Bock (Nucleic Acids Res., 2011)

AKSmooth: Enhancing low-coverage bisulfite sequencing data via kernel-based smoothing. - Junfang Chen; Pavlo Lutsik; Ruslan Akulenko; Jörn Walter; Volkhard Helms (J. Bioinform. Comput. Biol., 2014)

BiQ Analyzer HiMod: an interactive software tool for high-throughput locus-specific analysis of 5-methylcytosine and its oxidized derivatives. - Daniel Becker 006; Pavlo Lutsik; Peter Ebert; Christoph Bock; Thomas Lengauer; Jörn Walter (Nucleic Acids Res., 2014)

Identification and analysis of methylation call differences between bisulfite microarray and bisulfite sequencing data with statistical learning techniques. - Matthias Döring; Gilles Gasparoni; Jasmin Gries; Karl Nordström; Pavlo Lutsik; Jörn Walter; Nico Pfeifer (BMC Bioinform., 2015)

The Influence of Hydroxylation on Maintaining CpG Methylation Patterns: A Hidden Markov Model Approach. - Pascal Giehr; Charalampos Kyriakopoulos; Gabriella Ficz; Verena Wolf; Jörn Walter (PLoS Comput. Biol., 2016)

A Stochastic Model for the Formation of Spatial Methylation Patterns. - Alexander Lück; Pascal Giehr; Jörn Walter; Verena Wolf (CMSB, 2017)

REGGAE: a novel approach for the identification of key transcriptional regulators. - Tim Kehl; Lara Schneider; Kathrin Kattler; Daniel Stöckel; Jenny Wegert; Nico Gerstner; Nicole Ludwig 001; Ute Distler; Markus Schick; Ulrich Keller; Stefan Tenzer; Manfred Gessler; et al. (Bioinform., 2018)

A Hybrid HMM Approach for the Dynamics of DNA Methylation. - Charalampos Kyriakopoulos; Pascal Giehr; Alexander Lück; Jörn Walter; Verena Wolf (HSB, 2019)

Hidden Markov Modelling Reveals Neighborhood Dependence of Dnmt3a and 3b Activity. - Alexander Lück; Pascal Giehr; Karl Nordström; Jörn Walter; Verena Wolf (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

GeneTrail 3: advanced high-throughput enrichment analysis. - Nico Gerstner; Tim Kehl; Kerstin Lenhof; Anne Müller; Carolin Mayer; Lea Eckhart; Nadja Liddy Grammes; Caroline Diener; Martin Hart; Oliver Hahn 004; Jörn Walter; Tony Wyss-Coray; et al. (Nucleic Acids Res., 2020)

Machine learning for deciphering cell heterogeneity and gene regulation. - Michael Scherer; Florian Schmidt 003; Olga Lazareva; Jörn Walter; Jan Baumbach; Marcel H. Schulz; Markus List (Nat. Comput. Sci., 2021)

Effects of Resistant Starch on Symptoms, Fecal Markers, and Gut Microbiota in Parkinson's Disease - The RESISTA-PD Trial. - Anouck Becker; Georges Pierre Schmartz; Laura Gröger; Nadja Liddy Grammes; Valentina Galata; Hannah Philippeit; Jacqueline Weiland; Nicole Ludwig 001; Eckart Meese; Sascha Tierling; Jörn Walter; Andreas Schwiertz; et al. (Genom. Proteom. Bioinform., 2022)