Fig 1.
General architecture of the hybrid modeling framework.
Table 1.
RASF-specific components and the export direction used to infer a Boolean model from the RA-map V2 using CaSQ.
Fig 2.
Statistical analysis of the RASF model. (A) Distribution of the RASF model’s cellular specificity. (B) Distribution of the RASF model’s cellular specificity when only exclusive components are considered. (C) Annotation score’s distribution among the RASF model’s components.
Fig 3.
Simulation of the RASF model under RASF-specific initial conditions performed on the Cell Collective platform.
The different curves depict the state of the phenotype components.
Table 2.
RASF-specific initial conditions extracted from literature.
Regulatory model’s inputs are marked with an asterisk.
Table 3.
Projection of the RASF model’s trap-spaces on its nine ontological phenotypes.
Fig 4.
Summary of the major active pathways of central metabolism according to Flux Balance Analysis in control (A) and RASF-specific conditions (B) with maximum cellular ATP production as objective function.
Table 4.
Regulatory knock-out/knock-in simulations’ set of initial conditions along with their FBA results in terms of total cellular ATP production from glycolysis and OXPHOS.
Each component’s value initially set to 1/0 in RASF-specific conditions was alternatively set to 0/1 while the others remained at RASF-specific values.