Ranges of control in the transcriptional regulation of Escherichia coli. - Nikolaus Sonnenschein; Marc-Thorsten Hütt; Helga Stoyan; Dietrich Stoyan (BMC Syst. Biol., 2009)

Analog regulation of metabolic demand. - Nikolaus Sonnenschein; Marcel Geertz; Georgi Muskhelishvili; Marc-Thorsten Hütt (BMC Syst. Biol., 2011)

A network perspective on metabolic inconsistency. - Nikolaus Sonnenschein; José Felipe Golib Dzib; Annick Lesne; Sebastian Eilebrecht; Sheerazed Boulkroun; Maria-Christina Zennaro; Arndt Benecke; Marc-Thorsten Hütt (BMC Syst. Biol., 2012)

A network characterization of metabolix flux predictions, medium-dependant essentiality and metabolic inconsistency. - Nikolaus Sonnenschein (2012)

Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. - Zachary A. King; Andreas Dräger; Ali Ebrahim; Nikolaus Sonnenschein; Nathan E. Lewis; Bernhard O. Palsson (PLoS Comput. Biol., 2015)

Optlang: An algebraic modeling language for mathematical optimization. - Kristian Jensen; João G. R. Cardoso; Nikolaus Sonnenschein (J. Open Source Softw., 2017)

MARSI: metabolite analogues for rational strain improvement. - João G. R. Cardoso; Ahmad A. Zeidan; Kristian Jensen; Nikolaus Sonnenschein; Ana Rute Neves; Markus J. Herrgård (Bioinform., 2018)

teemi: An open-source literate programming approach for iterative design-build-test-learn cycles in bioengineering. - Søren D. Petersen; Lucas Levassor; Christine M. Pedersen; Jan Madsen; Lea G. Hansen; Jie Zhang; Ahmad K. Haidar; Rasmus John Normand Frandsen; Jay D. Keasling; Tilmann Weber; Nikolaus Sonnenschein; Michael K. Jensen (PLoS Comput. Biol., 2024)