VANESA - A Software Application for the Visualization and Analysis of Networks in System Biology Applications. - Christoph Brinkrolf; Sebastian Janowski; Benjamin Kormeier; Martin Lewinski; Klaus Hippe; Daniela Borck; Ralf Hofestädt (J. Integr. Bioinform., 2014)

Visualization and Analysis of MicroRNAs within KEGG Pathways using VANESA. - Hamid Hamzeiy; Rabia Suluyayla; Christoph Brinkrolf; Sebastian Jan Janowski; Ralf Hofestädt; Jens Allmer (J. Integr. Bioinform., 2017)

OMPetri - A Software Application for Modeling and Simulation Using Extended Hybrid Petri Nets by Employing OpenModelica. - Christoph Brinkrolf; Philo Reipke (Petri Nets, 2018)

Visualization and Analysis of miRNAs Implicated in Amyotrophic Lateral Sclerosis Within Gene Regulatory Pathways. - Hamid Hamzeiy; Rabia Suluyayla; Christoph Brinkrolf; Sebastian Jan Janowski; Ralf Hofestädt; Jens Allmer (GMDS, 2018)

OMPetri: A New Petri Net Simulation Environment Based on OpenModelica. - Ralf Hofestädt; Christoph Brinkrolf; Philo Reipke (ICBBT, 2018)

Modeling and Simulating the Aerobic Carbon Metabolism of a Green Microalga Using Petri Nets and New Concepts of VANESA. - Christoph Brinkrolf; Nadja A. Henke; Lennart A. Ochel; Boas Pucker; Olaf Kruse; Petra Lutter (J. Integr. Bioinform., 2018)

VANESA: An open-source hybrid functional Petri net modeling and simulation environment in systems biology. - Christoph Brinkrolf; Lennart Ochel; Ralf Hofestädt (Biosyst., 2021)

On Quantitative Modeling and Simulation of Biological Systems: An Open-Source Approach Using Biological Networks and Rule-Based Transformation to Hybrid Functional Petri Nets - Christoph Brinkrolf (2023)

Petri net modeling and simulation of post-transcriptional regulatory networks of human embryonic stem cell (hESC) differentiation to cardiomyocytes. - Aruana F. F. Hansel-Fröse; Christoph Brinkrolf; Marcel Friedrichs; Bruno Dallagiovanna; Lucía Spangenberg (J. Integr. Bioinform., 2025)