Supplementary Figure 6: Comparison of signaling across cell lines. | Nature Biotechnology

Supplementary Figure 6: Comparison of signaling across cell lines.

From: Reconstructing kinase network topologies from phosphoproteomics data reveals cancer-associated rewiring

Supplementary Figure 6

(a) Comparison of PDT kinase enrichment across the named cell models. Z-scores were calculated using the PAGE method as in (BMC Bioinformatics 6, 144, 2005) and (PNAS 112, 7719-7724, 2015) and p-values using a two-sided Kolmogorov-Smirnov test as in (PNAS 102, 15545-15550, 2005). FDR was calculated by adjusting p-values for multiple testing using the Benjamin-Hochberg method. These statistics were applied to the mean phosphoproteomics data of four independent experiments. For clarify not all kinases are labeled. (b) Phosphopeptides ion intensities (summed peak area) of phosphopeptides containing the named phosphorylation site across the named cell models (n = 3 independent experiments performed in technical replicate). Boxplots show median and interquartile ranges. P-values were calculated by Annova using R (ggpubr).

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