Inference of dynamic biological networks based on responses to drug perturbations

Noah Berlow, Lara Davis, Charles Keller, Ranadip Pal

Research output: Contribution to journalArticlepeer-review

2 Scopus citations

Abstract

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.

Original languageEnglish (US)
Article number14
Pages (from-to)1-16
Number of pages16
JournalTijdschrift voor Urologie
Volume2014
Issue number1
DOIs
StatePublished - Jan 17 2014

Keywords

  • Drug perturbation experiments
  • Network inference
  • Pathway design

ASJC Scopus subject areas

  • Urology

Fingerprint Dive into the research topics of 'Inference of dynamic biological networks based on responses to drug perturbations'. Together they form a unique fingerprint.

Cite this