CCAM welcomes the new Assistant Professor Dr. Sarvenaz Sarabipour! Dr. Sarabipour received her PhD in Engineering from Johns Hopkins University and performed her postdoctoral work at Johns Hopkins Institute for Computational Medicine and Department of Biomedical Engineering. Sarvenaz’s research in computational systems biology focuses on developing experimental and computational methods to study mechanisms of signal transduction in cells and tissue. The Sarabipour lab is accepting students!

VCell and COPASI were presented at HARMONY 2024 (https://co.mbine.org/author/harmony-2024/) at University College London. Michael Blinov gave a tutorial on VCell, while Frank Bergman (one of COPASI developers) talked about the web version of COPASI running through JavaScript.  Other topics discussed include interoperability of multiple standards like SBML, SED-ML and COMBINE archive supported by both VCell and COPASI.

13 March 2024. Kshitiz lab has published a manuscript on “Lactate in breast cancer cells is associated with evasion of hypoxia-induced cell cycle arrest and adverse patient outcome”, https://link.springer.com/article/10.1007/s13577-024-01046-1

VCell, COPASI and SpringSalad were taught and used for projects at the  25th Annual Computational Cell Biology (CCB) workshop that took place online February 26-28th.  The invited talks were given by Yulia Timofeeva (University of Warwick), James P Sluka (Indiana University) and Kevin Janes (University of Virginia). Sixteen participants were selected to work with VCell and COPASI instructors on their projects, and eight gave presentations on their projects at the Modeling Symposium.

28 February 2024. Dr. Kshitiz lab published a manuscript on “Oscillatory Hypoxia Can Induce Senescence of Adipose-Derived Mesenchymal Stromal Cells Potentiating Invasive Transformation of Breast Epithelial Cells”, https://doi.org/10.3390/cancers16050969