Combinatorial high-throughput experimental and bioinformatic approach identifies molecular pathways linked with the sensitivity to anticancer target drugs

Oncotarget
Larisa S VenkovaAnton A Buzdin

Abstract

Effective choice of anticancer drugs is important problem of modern medicine. We developed a method termed OncoFinder for the analysis of new type of biomarkers reflecting activation of intracellular signaling and metabolic molecular pathways. These biomarkers may be linked with the sensitivity to anticancer drugs. In this study, we compared the experimental data obtained in our laboratory and in the Genomics of Drug Sensitivity in Cancer (GDS) project for testing response to anticancer drugs and transcriptomes of various human cell lines. The microarray-based profiling of transcriptomes was performed for the cell lines before the addition of drugs to the medium, and experimental growth inhibition curves were built for each drug, featuring characteristic IC50 values. We assayed here four target drugs - Pazopanib, Sorafenib, Sunitinib and Temsirolimus, and 238 different cell lines, of which 11 were profiled in our laboratory and 227 - in GDS project. Using the OncoFinder-processed transcriptomic data on ~600 molecular pathways, we identified pathways showing significant correlation between pathway activation strength (PAS) and IC50 values for these drugs. Correlations reflect relationships between response to drug and pathway ac...Continue Reading

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Citations

Jun 9, 2016·Cell Cycle·Eugene MakarevAnthony Atala
Jun 4, 2020·Biomedicines·Maxim SorokinRoman Kholodenko

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Datasets Mentioned

BETA
GSE65314

Methods Mentioned

BETA
Chip
Whole Genome Array

Software Mentioned

OncoFinder
GeneGo MetaCore
Metacore
R
SigmaPlot

Related Concepts

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