2021-6-24 CCAM’s annual Computational Cell Biology Workshop was again held online June 21-23, 2021. The workshop provided instruction to over 50 individuals from around the world on mathematical modeling techniques using VCell, COPASI and SpringSaLaD software. Fifteen of the participants worked closely with CCAM researchers to develop their own models related to their research projects. Another successful year for the modeling workshop! a combined workshop for VCell, COPASI, and SpringSaLaD modeling software. Thanks to all for a very successful course! Videos of the classes and presentations can be found on the CompCellBiol YouTube channel.
2021-03-23.VCell 7.4 has been released. New in VCell 7.4 is the ability to preview geometries from the VCell database, vastly accelerated multiple trajectory stochastic simulations using the Gibson-Bruck solver, extension of unit display and automatic conversion to rate and assignment rules, support for external access to containerized versions of some VCell solvers with command line execution, as well as numerous additional improvements and bug fixes.
2020-11-30. Announcing the release of VCell 7.3! VCell 7.3 adds capabilities for multiple trajectories for non-spatial stochastic simulationss, interchange with the Open Modeling EXchange format (.omex), and automatic assignment of catalysts in the reaction diagram as well as numerous additional improvements and bug fixes.
2020-11-16. A new publication from the Lambert lab investigates the mechanisms that set the dynamic range of agonist-induced signaling using fluorescence imaging coupled with VCell modeling. Visit our published models page for links to the paper and to access the VCell model.
2020-9-3. A new VCell model created incollaboration between the McCulloch and Zhang labs helped to demonstrate that a second phase of RhoA activation is required to maintain RhoA-mediated transcription after receptor signalling ends. Find links to the model and paper by Zhang et al. on our published models page.
2020-10-20. A new publication from the Rangamani and Iyengar labs using VCell modeling to explore how cell shape affects calcium dynamics in vascular smooth muscle cells. Visit our published models page for links to the paper.
2020-08-05. The 2020 Computational Cell Biology Workshop was held as an online event Aug 3-5. Find videos of the key presentations here. Over 70 individuals participated overall; 16 individuals created models with VCell, COPASI and SpringSaLaD with help from CCAM team members in breakout rooms. A screen shot of one the opening day presentations serves in place of our traditional group photo this year.
2020-07-10. A new publication analyzes fluorescence photobleaching experiments using VCell numerical simulations to explore mechanisms of for differentiating somatodendritic and axonal compartments. Visit our published models page for links to the paper.
2020-04-07. A new spatial model of the PLC/PKC pahtway created in VCell was used to explore chemotactic sensing in fibroblasts in a new publication by Nosbisch et al from the Haugh lab. Visit our published models page for links to the paper and the VCell model.
2019-12-10. VCell 7.2 has been released. See the Release Notes for a full list of the many new features in VCell 7.2 including new functionality to store identifiers and text annotations for model components, a service linking VCell simulation with ImageJ image analysis functions, rate rules and assignment rules in ODE applications, improved SBML import along with several other improvements.
2019-6-18 CCAM hosted a Computational Cell Biology Workshop on June 24-26, 2019, a combined workshop for both VCell and COPASI modeling software. Ten scientists from the US, Netherlands and Germany traveled to work with the VCell and COPASI teams to construct models based on their own research interests. It was exciting to see VCell and COPASI models applied to such interesting cell biology projects. Thanks to all for a very successful course!
2019-06-13. A new Molecular Biology of the Cell publication from the Rangamani lab uses VCell and COPASI to develop a model to examine cross-talk between receptor tyrosine kinases and G proteins that regulate cAMP levels. Visit our published models page for links to the paper and to the VCell Biomodel.
2019-06-04. A new publication in Science Signaling from the Haugh and Rao labs describes the use of VCell modeling to assist in designing improved SH2 domain biosensors of EGFR phosphorylation. Visit our published models page for links to the paper and to the VCell Biomodel.
2019-02-14. A VCell spatial model created to identify mechanisms regulating membrane abundance of the small Gprotein RAF1 at the plasma membrane has been published in Molecular Biology of the Cell. Visit our published models page for links to the paper and to the VCell Biomodel.
2019-02-04. A new publication from the Hille lab uses a VCell model to reveal emergent properties of the behavior of voltage-sensitive phosphatases. Visit our published models page for links to the paper and to the VCell Biomodel.