Manifest.toml and Project.toml contain the packages and their versions used to do all modeling in this paper. The below details will tell you which sheet will recreate each figure. All model definition files, and analysis is performed in these sheets.
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increasedcRel_RelA_models.ipynb
- Will generate the simulations with increased cRel, RelA and RelB from Figure 1C and 1D.
- Notebook can be viewed without running here
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cellLineModelsFromGeneExpression.ipynb
- Will generate figure 1A and all panels of Figure 2.
- Notebook can be viewed without running here
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generateModelFingerprints.ipynb
- Will generate the Fingerprints for all modelled cell lines, as seen in Figure 4 and S1.
- Notebook can be viewed without running here
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- Will generate the cytokine expression data bar graphs for the supplemental figure.
- Notebook can be viewed without running here
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Figure5/CellLineModelandfingerprinting.ipynb
- Will generate the cell line models with and without mutations as seen in Figure 5.
- Notebook can be viewed without running here
