Tanglegrams for rooted phylogenetic trees and networks. - Céline Scornavacca; Franziska Zickmann; Daniel H. Huson (Bioinform., 2011)

Analyzing genome coverage profiles with applications to quality control in metagenomics. - Martin S. Lindner; Maximilian Kollock; Franziska Zickmann; Bernhard Y. Renard (Bioinform., 2013)

RNA-seq driven gene identification. - Franziska Zickmann; Martin S. Lindner; Bernhard Y. Renard (GCB, 2014)

Specificity control for read alignments using an artificial reference genome-guided false discovery rate. - Sven H. Giese; Franziska Zickmann; Bernhard Y. Renard (Bioinform., 2014)

GIIRA - RNA-Seq driven gene finding incorporating ambiguous reads. - Franziska Zickmann; Martin S. Lindner; Bernhard Y. Renard (Bioinform., 2014)

MSProGene: integrative proteogenomics beyond six-frames and single nucleotide polymorphisms. - Franziska Zickmann; Bernhard Y. Renard (Bioinform., 2015)

Computational methods and graphical models for integrative proteogenomics (Methoden und graphische Modelle für die integrative Proteogenomik) - Franziska Zickmann (2015)