Inferring Evolutionary Scenarios for Protein Domain Compositions. - John Wiedenhoeft; Roland Krause; Oliver Eulenstein (ISBRA, 2010)

The Plexus Model for the Inference of Ancestral Multidomain Proteins. - John Wiedenhoeft; Roland Krause; Oliver Eulenstein (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

Indel-tolerant read mapping with trinucleotide frequencies using cache-oblivious kd-trees. - Md Pavel Mahmud; John Wiedenhoeft; Alexander Schliep (Bioinform., 2012)

Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. - John Wiedenhoeft; Eric Brugel; Alexander Schliep (PLoS Comput. Biol., 2016)

Bayesian localization of CNV candidates in WGS data within minutes. - John Wiedenhoeft; Alex Cagan; Rimma Kozhemyakina; Rimma Gulevich; Alexander Schliep (Algorithms Mol. Biol., 2019)