2022-09-28.VCell and COPASI were used together to study the kinetic behavior of antibiotic biosynthesis. The paper describes the same model designed in both COPASI (for parameter estimations) and VCell (for simulation reaction curves). Find links to the paper on our published models page.
2022-09-12. The VCell team will give a tutorial at the 21st International Conference on Systems Biology – the premier meeting on systems studies in biology, human evolution disease and planetary health. The meeting will take place in Berlin, Germany on October 8th-12th. The tutorial will be on October 9th at 12:30pm local time (https://www.icsb2022.berlin/satellite-events).
2022-05-25. The 23rd Computational Cell Biology workshop took place at R. D. Berlin Center for Cell Analysis and Modeling (CCAM) on May 23-25th. For 3 days more than 40 online participants learnt how to use VCell, COPASI and SpringSalad software tools for modeling of cell biology systems. 16 participants participated in the “project track”, working individually with CCAM staff on developing their modeling projects.
2022-04-14. A new compartmental VCell Model was used to explore nutrients transporter network in plants. Find links to the paper and BioModel on our published models page.
2022-02-10. VCell was used to analyze structure of a B12-dependent radical SAM enzyme in carbapenem biosynthesis in a new Nature paper (available on our published models page).
The Atypical Cobalamin-Dependent S-Adenosyl-l-Methionine Nonradical Methylase TsrM and Its Radical Counterparts.
Ulrich EC, Drennan CL
J Am Chem Soc. 2022 Apr 6;144(13):5673-5684
PUBMED:35344653
doi:10.1021/jacs.1c12064
A kinetic model of phospholipase C-γ1 linking structure-based insights to dynamics of enzyme autoinhibition and activation.
Nosbisch JL, Bear JE, Haugh JM.
J Biol Chem. 2022 May;298(5):101886.
PUBMED:35367415
doi: 10.1016/j.jbc.2022.101886
VCell BioModels referenced in publication
user: jnosbis
biomodel name: Nosbisch PLCgamma1 2021
biomodel name: Nosbisch PLCgamma1 + polarization 2021
Methylations in complex carbapenem biosynthesis are catalyzed by a single cobalamin-dependent radical S-adenosylmethionine enzyme.
Sinner EK, Lichstrahl MS, Li R, Marous DR, Townsend CA
Chem Commun (Camb). 2019 Dec 10;55(99):14934-14937.
PUBMED:31774078
doi:10.1039/c9cc07197k
