Drug off-target effects predicted using structural analysis in the context of a metabolic network model.

TitleDrug off-target effects predicted using structural analysis in the context of a metabolic network model.
Publication TypeJournal Article
Year of Publication2010
AuthorsChang RL, Xie L, Xie L, Bourne PE, Palsson BØ
JournalPLoS computational biology
Volume6
Issue9
Paginatione1000938
PubMed Date2010
ISSN1553-7358
KeywordsAlgorithms, Computational Biology, Drug Discovery, Gene Expression Profiling, Humans, Kidney, Kidney Diseases, Kidney Function Tests, Metabolic Networks and Pathways, Metabolomics, Models, Biological, Protein Binding, Proteome, Quinolines, ROC Curve
Abstract

Recent advances in structural bioinformatics have enabled the prediction of protein-drug off-targets based on their ligand binding sites. Concurrent developments in systems biology allow for prediction of the functional effects of system perturbations using large-scale network models. Integration of these two capabilities provides a framework for evaluating metabolic drug response phenotypes in silico. This combined approach was applied to investigate the hypertensive side effect of the cholesteryl ester transfer protein inhibitor torcetrapib in the context of human renal function. A metabolic kidney model was generated in which to simulate drug treatment. Causal drug off-targets were predicted that have previously been observed to impact renal function in gene-deficient patients and may play a role in the adverse side effects observed in clinical trials. Genetic risk factors for drug treatment were also predicted that correspond to both characterized and unknown renal metabolic disorders as well as cryptic genetic deficiencies that are not expected to exhibit a renal disorder phenotype except under drug treatment. This study represents a novel integration of structural and systems biology and a first step towards computational systems medicine. The methodology introduced herein has important implications for drug development and personalized medicine.

Alternate JournalPLoS Comput. Biol.
PubMed ID20957118

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