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Results: 4

1.
Figure 2

Figure 2. From: Integration of Multiple Signaling Pathway Activities Resolves K-RAS / N-RAS Mutation Paradox in Colon Epithelial Cell Response to Inflammatory Cytokine Stimulation.

Signaling dynamics in response to TNFα treatment. (A) Individual time courses for the four phosphoproteins indicated that DKs8-N and DLD-N cells had similar signaling dynamics. (B) Cluster analysis by UPGMA confirmed the similarity between DKs8-N and DLD-N cells. Each box represents the scaled average signal for a particular time, ordered from early to late times.

Pamela K. Kreeger, et al. Integr Biol (Camb). ;2(4):202-208.
2.
Figure 4

Figure 4. From: Integration of Multiple Signaling Pathway Activities Resolves K-RAS / N-RAS Mutation Paradox in Colon Epithelial Cell Response to Inflammatory Cytokine Stimulation.

(A) In silico predictions using mixed data sets demonstrate the balance between different signaling components. Apoptosis was predicted from the PLSR model using the full DLD-N signaling data set (black) versus data sets with three DLD-N time-courses and a single protein time-course substituted from DKs8-N (DN, red) or DLD-1 (DLD, blue). (B) Summary of the observed impact of changing signal data on the prediction of apoptosis.

Pamela K. Kreeger, et al. Integr Biol (Camb). ;2(4):202-208.
3.
Figure 1

Figure 1. From: Integration of Multiple Signaling Pathway Activities Resolves K-RAS / N-RAS Mutation Paradox in Colon Epithelial Cell Response to Inflammatory Cytokine Stimulation.

Cells with mutations in both N-RAS and K-RAS are sensitive to TNFα. (A) Overview of the RAS genotypes of the three cell lines. (B) Levels of active (RBD) and total K- and N-RAS for each cell line. (C) The percentage of apoptotic cells was determined by flow cytometry from the percentage of cells that were positive for both cleaved caspase-3 and cleaved PARP. (D) DLD-1 and DLD-N cells demonstrated a similar sensitivity to TNFα, while DKs8-N cells were more resistant.

Pamela K. Kreeger, et al. Integr Biol (Camb). ;2(4):202-208.
4.
Figure 3

Figure 3. From: Integration of Multiple Signaling Pathway Activities Resolves K-RAS / N-RAS Mutation Paradox in Colon Epithelial Cell Response to Inflammatory Cytokine Stimulation.

A PLSR model built on single-mutant signaling and apoptosis is able to predict dual-mutant apoptosis. (A) The PLSR model accurately predicted the elevated sensitivity of DLD-N cells to TNFα. (B) Scores for the three cell lines in the first and second component. The first component is consistent with a ‘TNFα treatment’ axis. (C) Loadings for the first two components of the single-mutant PLSR model. CP indicates the loadings for the response metric of cleaved caspase-3 and cleaved PARP positive cells.

Pamela K. Kreeger, et al. Integr Biol (Camb). ;2(4):202-208.

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