Data from Integrative Radiogenomic Profiling of Squamous Cell Lung Cancer

Abstract

<div>Abstract<p>Radiotherapy is one of the mainstays of anticancer treatment, but the relationship between the radiosensitivity of cancer cells and their genomic characteristics is still not well defined. Here, we report the development of a high-throughput platform for measuring radiation survival <i>in vitro</i> and its validation in comparison with conventional clonogenic radiation survival analysis. We combined results from this high-throughput assay with genomic parameters in cell lines from squamous cell lung carcinoma, which is standardly treated by radiotherapy, to identify parameters that predict radiation sensitivity. We showed that activation of <i>NFE2L2</i>, a frequent event in lung squamous cancers, confers radiation resistance. An expression-based, <i>in silico</i> screen nominated inhibitors of phosphoinositide 3-kinase (PI3K) as <i>NFE2L2</i> antagonists. We showed that the selective PI3K inhibitor, NVP-BKM120, both decreased NRF2 protein levels and sensitized <i>NFE2L2</i> or <i>KEAP1</i>-mutant cells to radiation. We then combined results from this high-throughput assay with single-sample gene set enrichment analysis of gene expression data. The resulting analysis identified pathways implicated in cell survival, genotoxic stress, detoxification, and innate and adaptive immunity as key correlates of radiation sensitivity. The integrative and high-throughput methods shown here for large-scale profiling of radiation survival and genomic features of solid-tumor–derived cell lines should facilitate tumor radiogenomics and the discovery of genotype-selective radiation sensitizers and protective agents. <i>Cancer Res; 73(20); 6289–98. ©2013 AACR</i>.</p></div>