In this paper, we present the re-implementation of a stochastic simulation of Boolean models using MaBoSS in an agent-based model simulator using PhysiCell. We propose this work as a suitable framework to capture macroscopic phenotypical changes from environment and genetic perturbations.

We present a tool to uncover personalised drug treatments. First, we personalised prostate models to 488 TCGA patients and 8 cell lines. Then, we study the effect of single and combined drugs for each of these models. In one particular cell-line, we identified 15 actionable points of which 9 were tested and found a dose-dependent effect on four of them.

An overview of where is the multiscale modelling field and what it needs to have complex, giga-scale simulations

Several omics were gathered from a collection of medulloblastoma samples and we applied different pathway analyses to characterise different subgorups, notably the usually amalgamated group 3 and 4.

Paper with the first reconstruction of a cyanobacterium where a single metabolic network is simulated under different growth conditions. Potentialities as a production platform are studied as well as transcriptomic data integration.