Analyzing pathway design from drug perturbation experiments
Noah Berlow, Ranadip Pal, Lara Emily Davis, Charles Keller · 2012
Drugs that target specific kinases are becoming common in cancer research. In this article, we analyze the design of a modeling approach for drug sensitivity prediction and combination targeted therapy design based on drug perturbation experiments. We consider a target inhibition map model that predicts the tumor sensitivities for all possible combination of target inhibitions. The estimation of the model is based on experimental sensitivity data for multiple target inhibitory drugs. The target inhibition map model provides a steady-state snapshot of the underlying dynamical model. To analyze the robustness of the combination therapy design approach, we consider the inverse problem of possible dynamic models that can generate the target inhibition map model and their transient and steady state response to drugs. We showed that the knowledge of the steady state target inhibition map can be used to estimate the directional pathway using a small number of steady state target expression measurements.