Inference of dynamic biological networks based on responses to drug perturbations.

Autor: Berlow N; Department of Electrical and Computer Engineering, Texas Tech University, Lubbock, 79409 TX USA., Davis L; Department of Pediatrics, Oregon Health & Science University, Portland, 97239 OR USA., Keller C; Department of Pediatrics, Oregon Health & Science University, Portland, 97239 OR USA., Pal R; Department of Electrical and Computer Engineering, Texas Tech University, Lubbock, 79409 TX USA.
Jazyk: angličtina
Zdroj: EURASIP journal on bioinformatics & systems biology [EURASIP J Bioinform Syst Biol] 2014 Sep 25; Vol. 2014, pp. 14. Date of Electronic Publication: 2014 Sep 25 (Print Publication: 2014).
DOI: 10.1186/s13637-014-0014-1
Abstrakt: Drugs that target specific proteins are a major paradigm in cancer research. In this article, we extend a modeling framework for drug sensitivity prediction and combination therapy design based on drug perturbation experiments. The recently proposed target inhibition map approach can infer stationary pathway models from drug perturbation experiments, but the method is limited to a steady-state snapshot of the underlying dynamical model. We consider the inverse problem of possible dynamic models that can generate the static target inhibition map model. From a deterministic viewpoint, we analyze the inference of Boolean networks that can generate the observed binarized sensitivities under different target inhibition scenarios. From a stochastic perspective, we investigate the generation of Markov chain models that satisfy the observed target inhibition sensitivities.
Databáze: MEDLINE
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