Fig. 3: Model v4 recapitulated fold change in expression of many early response genes in subcluster 2. | npj Systems Biology and Applications

Fig. 3: Model v4 recapitulated fold change in expression of many early response genes in subcluster 2.

From: IκBα is required for full transcriptional induction of some NFκB-regulated genes in response to TNF in MCF-7 cells

Fig. 3

a Schematic of the four mathematical models. The color code corresponds with the background color of each model. b Fraction of the good-fit genes from their best-fit mathematical models. c Heatmaps of the time-course gene expression from experimental results and data fit from the best-fit model. Each color bar indicates the best-fit model (blue: simple model, magenta: IFFL model, green: 3-state cycle model, and purple: model v4), which shows the smallest total nRMSD (nRMSD in Ctrl from rep1 + nRMSD in siIκBα from rep1 + nRMSD in Ctrl from rep2 + nRMSD in siIκBα from rep2). Gray colored bars indicate genes that did not show a good fit with any of the four mathematical models, and the results from the simple model are shown.

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