Ciro Santilli GPU accelerated, simulates the Craig's minimized M. genitalium, JCVI-syn3A at a particle basis of some kind.
Lab head is the cutest-looking lady ever: chemistry.illinois.edu/zan, Zaida (Zan) Luthey-Schulten.
- 2022 paper: www.cell.com/cell/fulltext/S0092-8674(21)01488-4 Fundamental behaviors emerge from simulations of a living minimal cell by Thornburg et al. (2022) published on Cell
- faculty.scs.illinois.edu/schulten/lm/ actual source code. No Version control and non-code drop release, openess and best practices haven't reached such far obscure reaches of academia yet. One day.
- blogs.nvidia.com/blog/2022/01/20/living-cell-simulation/ Nvidia announcement. That's how they do business, it is quite interesting how they highlight this kind of research.
- catalog.ngc.nvidia.com/orgs/hpc/containers/lattice-microbes has a container
www.wholecellviz.org/viz.php awesome visualization of simtk, paper: www.ncbi.nlm.nih.gov/pmc/articles/PMC3413483/ A Whole-Cell Computational Model Predicts Phenotype from Genotype - 2013 - Jonathan R. Karr.
Followed up by the E. Coli Whole Cell Model by Covert Lab.