Integration of time-resolved transcriptomics data with flux-based methods reveals stress-induced metabolic adaptation in Escherichia coli. - Nadine Töpfer; Szymon Jozefczuk; Zoran Nikoloski (BMC Syst. Biol., 2012)

Variability of Metabolite Levels Is Linked to Differential Metabolic Pathways in Arabidopsis's Responses to Abiotic Stresses. - Nadine Töpfer; Federico Scossa; Alisdair R. Fernie; Zoran Nikoloski (PLoS Comput. Biol., 2014)

iReMet-flux: constraint-based approach for integrating relative metabolite levels into a stoichiometric metabolic models. - Max Sajitz-Hermstein; Nadine Töpfer; Sabrina Kleessen; Alisdair R. Fernie; Zoran Nikoloski (Bioinform., 2016)

CobraMod: a pathway-centric curation tool for constraint-based metabolic models. - Stefano Camborda; Jan-Niklas Weder; Nadine Töpfer (Bioinform., 2022)