inGeno - an integrated genome and ortholog viewer for improved genome to genome comparisons. - Chunguang Liang; Thomas Dandekar (BMC Bioinform., 2006)

Integrated network reconstruction, visualization and analysis using YANAsquare. - Roland Schwarz 002; Chunguang Liang; Christoph Kaleta; Mark Kühnel; Eik Hoffmann; Sergei Kuznetsov; Michael Hecker; Gareth Griffiths 003; Stefan Schuster; Thomas Dandekar (BMC Bioinform., 2007)

JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes. - Chunguang Liang; Alexander Schmid 001; María José López-Sánchez; Andrés Moya; Roy Gross; Jörg Bernhardt; Thomas Dandekar (BMC Bioinform., 2009)

GoSynthetic database tool to analyse natural and engineered molecular processes. - Chunguang Liang; Beate Krüger; Thomas Dandekar (Database J. Biol. Databases Curation, 2013)

The drug-minded protein interaction database (DrumPID) for efficient target analysis and drug development. - Meik Kunz; Chunguang Liang; Santosh Nilla; Alexander Cecil; Thomas Dandekar (Database J. Biol. Databases Curation, 2016)

Analyzing pharmacological intervention points: A method to calculate external stimuli to switch between steady states in regulatory networks. - Tim Breitenbach; Chunguang Liang; Niklas Beyersdorf; Thomas Dandekar (PLoS Comput. Biol., 2019)

A principal feature analysis. - Tim Breitenbach; Lauritz Rasbach; Chunguang Liang; Patrick Jahnke (J. Comput. Sci., 2022)