Qualitative Dynamical Modelling Can Formally Explain Mesoderm Specification and Predict Novel Developmental Phenotypes
Fig 5
Systematic simulations of double mutants.
This matrix displays the results of systematic perturbations. Loss- and gain-of-function mutations (rows and column) were simulated iteratively using a set of Python scripts, along with pairwise combinations (cf. Material and methods). The results of the simulations of single mutants are displayed on the diagonal of the matrix. The predicted phenotype for each double mutant is shown at the intersection of the corresponding column and row. Note that the cells corresponding to the crossing of a lof and a gof for the same gene are left empty. Simulation results are graphically depicted using vignettes as in Fig 4, with specific colours denoting situations with miss-expressed genes (cf. colour key top right). This presentation eases the comparison of the results of multiple mutant simulations and enables the identification of dominant or synergic effects. This matrix encompasses numerous predictions, along with a few dozens of documented phenotypes. The web version of the matrix (S2 File) further provides access to detailed information regarding the predicted patterns of expression for each mutant in each region. We have selected six perturbations (four single and two double ones, surrounded by tick squares in the matrix) for experimental validation (see Fig 6).