ConvAn: A convergence analyzing tool for optimization of biochemical networks. - Andrejs Kostromins; Ivars Mozga; Egils Stalidzans (Biosyst., 2012)

Paint4Net: COBRA Toolbox extension for visualization of stoichiometric models of metabolism. - Andrejs Kostromins; Egils Stalidzans (Biosyst., 2012)

SpaceScanner: COPASI wrapper for automated management of global stochastic optimization experiments. - Atis Elsts; Agris Pentjuss; Egils Stalidzans (Bioinform., 2017)

Total enzyme activity constraint and homeostatic constraint impact on the optimization potential of a kinetic model. - Vitalijs Komasilovs; Agris Pentjuss; Atis Elsts; Egils Stalidzans (Biosyst., 2017)

Search for a Minimal Set of Parameters by Assessing the Total Optimization Potential for a Dynamic Model of a Biochemical Network. - Egils Stalidzans; Ivars Mozga; Jurijs Sulins; Peteris Zikmanis (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Community effort endorsing multiscale modelling, multiscale data science and multiscale computing for systems medicine. - Massimiliano Zanin; Ivan Chorbev; Blaz Stres; Egils Stalidzans; Julio Vera; Paolo Tieri; Filippo Castiglione; Derek Groen; Huiru Zheng; Jan Baumbach; Johannes A. Schmid; José Basilio; et al. (Briefings Bioinform., 2019)

IMFLer: A Web Application for Interactive Metabolic Flux Analysis and Visualization. - Rudolfs Petrovs; Egils Stalidzans; Agris Pentjuss (J. Comput. Biol., 2021)