Table S1.
Data sets analyzed by RCR for model augmentation and evaluation.
| Model building data sets | Model evaluation data set | ||||
|---|---|---|---|---|---|
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| Process | DNA damage | Senescence | Senescence | ||
| Data set ID | GSE6206 | E-MEXP-1968 | GSE13330 | GSE19018 | GSE28464 |
| PubMed ID | 19584263 | 19363488 | 19155301 | Unpublished | 21512002 |
| Species | Mouse | Mouse | Human | Human | Human |
| Context | In vitro | In vitro | In vitro | In vitro | In vitro |
| Cell type | Embryonic fibroblasts | Dermal fibroblasts | Foreskin BJ fibroblasts | IMR90 lung fibroblasts | IMR90 lung fibroblasts |
| Perturbation | Cisplatin (16 μM) | UV irradiation (4 J/m2) | Bleomycin (100 μg/mL) Long term culture | Long term culture in 20% oxygen | Tamoxifen-inducible HRAS G12V expression |
| Timepoint(s) | 24 hr | 6 hr after UV exposure | 24 hr Late passage | 48 population doublings (old) | Day 4 post HRAS G12V induction |
| Control | Untreated | Non-irradiated (0 J/m2) | Early passage (young) | 30 population doublings (young) | Day 0 |
| # State changes | 3684 | 472 | 3355 2799 |
2257 | 3691 |
Notes: Four data sets relating to two different DACS Network areas (DNA damage and Senescence) were analyzed by RCR for the data-driven phase of model construction (Model Building Data Sets). One senescence data set was analyzed by RCR for model evaluation. This table provides a summary of the experimental details and comparisons used for each data set as well as the number of gene expression State Changes observed in each data set.