A General Paradigm for Fast, Adaptive Clustering of Biological Sequences. - Knut Reinert; Markus Bauer 001; Andreas Döring 001; Gunnar W. Klau; Aaron L. Halpern (German Conference on Bioinformatics, 2007)

Segment-based multiple sequence alignment. - Tobias Rausch; Anne-Katrin Emde; David Weese; Andreas Döring 001; Cédric Notredame; Knut Reinert (ECCB, 2008)

Fast and Adaptive Variable Order Markov Chain Construction. - Marcel H. Schulz; David Weese; Tobias Rausch; Andreas Döring 001; Knut Reinert; Martin Vingron (WABI, 2008)

SeqAn An efficient, generic C++ library for sequence analysis. - Andreas Döring 001; David Weese; Tobias Rausch; Knut Reinert (BMC Bioinform., 2008)

Biological Sequence Analysis Using the SeqAn C++ Library. - Andreas Gogol-Döring; Knut Reinert (CRC Press, 2009)

A consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads. - Tobias Rausch; Sergey Koren; Gennady Denisov; David Weese; Anne-Katrin Emde; Andreas Döring 001; Knut Reinert (Bioinform., 2009)

SeqAn - a generic software library for sequence. - Andreas Gogol-Döring (2009)

Finding Optimal Sets of Enriched Regions in ChIP-Seq Data. - Andreas Gogol-Döring; Wei Chen (GCB, 2010)

Explaining gene responses by linear modeling. - Yvonne Poeschl; Ivo Grosse; Andreas Gogol-Döring (GCB, 2014)

Enhort: a platform for deep analysis of genomic positions. - Michael Menzel; Peter Koch 006; Stefan Glasenhardt; Andreas Gogol-Döring (PeerJ Comput. Sci., 2019)

NoPeak: k-mer-based motif discovery in ChIP-Seq data without peak calling. - Michael Menzel; Sabine Hurka; Stefan Glasenhardt; Andreas Gogol-Döring (Bioinform., 2021)