Mastodawn

🧬 Ready to dive into biochemical modeling? Join our beginner-friendly intro tutorial for COPASI, the widely used tool for simulation and analysis of reaction networks!
Learn everything from GUI basics and building models to time-course simulations, plotting, and tool interoperability. 🧪
📅 July 8th, 2026 | 09:30 - 11:00 CEST
📍 Online
👥 Perfect for beginners!
📝 Registration: https://www.denbi.de/training-courses-2026/2106-introduction-to-copasi
#COPASI #SystemsBiology #Bioinformatics #OpenScience #Biotech #Webinar

de.NBI & ELIXIR Germany Feb 3

🌏 @deNBI delivers training across the globe! Tomorrow, we're in Auckland 🇳🇿 for a @COPASI workshop at HARMONY 2026.
📅 Feb 4, 2026 | ⏰ 9:05–10:30 NZDT
🔬 Learn how to model, simulate, and analyze biochemical reaction networks with COPASI
🌐 More info:
https://www.denbi.de/training-courses-2026/2026-exploring-new-features-of-copasi
#COPASI #Bioinformatics #SystemsBiology #Modeling #Auckland #HARMONY2026 #deNBI #LifeSciences #Training #QuantitativeBiology

Mike Hucka Feb 15, 2024

BioModels Database has launched a new competition for early career researchers → https://www.ebi.ac.uk/biomodels/competition/model-of-the-year-2024

Deadline is Feb. 29, 2024.

#SystemsBiology #ComputationalBiology #SBML #COPASI

Model Of The Year 2024 Competition | BioModels

BioModels is a repository of freely-available mathematical models of biological and biomedical systems. It hosts a vast selection of physiologically and pharmaceutically relevant mechanistic models in standard formats.

Pedro Mendes Apr 7, 2023

I spent a few months rebuilding a classic model from just its description in the original paper (von Dassow et al. 2000). Now I’ve added it to BioModels in standard formats so that everyone can use it https://www.ebi.ac.uk/biomodels/MODEL2304060001

I also wrote a manuscript about the experience and reproducibility. Soon to post as preprint.
#openscience #SBML #systemsbiology #COPASI @copasi

COPASI Mar 2, 2023

A recent paper in eLife shows that popular cell fixation methods can create artifacts in identifying condensates
https://doi.org/10.7554/eLife.79903

It uses COPASI and its python version, BasiCO, to demonstrate some of their findings.

Nice to see that one of their supplements is a jupyter notebook using BasiCO and COPASI

This and another 1200 papers that used COPASI are listed on our website:
https://copasi.org/Research/

#CellBiology #SystemsBiology #COPASI #jupyter #modeling #simulation

Fixation can change the appearance of phase separation in living cells

Different fixation protocols can both enhance and diminish the appearance of liquid–liquid phase separation (LLPS) droplets presenting a caveat in using fixed-cell imaging to diagnose LLPS.

eLife