Data files

Log2 fold changes after drug treatment/serum stimulation of MAPK and AKT pathway nodes

Log2 fold changes after drug treatment/serum stimulation of MAPK and AKT pathway nodes

Log2 fold changes after drug treatment/serum stimulation of MAPK and AKT pathway nodes

Input data (viscosities, in .csv format) for the modelling workflow, collected from literature, see associated publication for details.

RCM: Reaction-Compound Mapping, an edge between nodes means reaction contains metabolite MMM: Metabolite-Metabolite Mapping, an edge between nodes means these metabolites are reaction partners

_comp: entire network after removal of duplicated edges _del: taken from the entire network the largest connected subgraph after deletion of a set of nodes _upload: entire network before removal of duplicated edges

X_depthY: subgraphs where X is a chosen central component and Y is the Yth of neighbour to ...

The reactions existing in the auto-generated draft model are shown in blue, and the manually filled gaps are shown in green. Comparing our draft model with the same subsystem from model iHepatocytes2322, the missing reactions are highlighted in pink. The pink dots indicate the parent toxicants.

For each drug and condition, there is one:

• Visualization of the marginals and the sampling traces
• The credibility intervals for the parameters with the median
• Visualization of the individual ensemble output predictions with boxplots of the underlying data

Furthermore all conditions of the ensemble output predictions for one drug are visulized in one plot.

Concentrations of the egg yolk precursor protein vitellogenin (Vtg) in cod plasma - 10 samples from each exposure group, IV1 experiment

Concentrations of vitellogenin in blood plasma in cod caged in Kollevåg and at reference location.

Vmaxes E. faecalis from chemostat cultures, D0.05, D0.15 en D0.4 triplicates for every growthrate, measured in in-vivo-like assay (Goel, Teusink, AEM, 2012) glycolytic enzymes + LDH + acetate/EtOH branch

• Amira raw data of nuclear structures of P. cordatum
• Volume calculations of nuclear structures of_ P. cordatum _