Integrative radiogenomic profiling of squamous cell lung Cancer

Mohamed E. Abazeed, Drew J. Adams, Kristen E. Hurov, Pablo Tamayo, Chad J. Creighton, Dmitriy Sonkin, Andrew O. Giacomelli, Charles Du, Daniel F. Fries, Kwok Kin Wong, Jill P. Mesirov, Jay S. Loeffler, Stuart L. Schreiber, Peter S. Hammerman, Matthew Meyerson*

*Corresponding author for this work

Research output: Contribution to journalArticle

58 Scopus citations

Abstract

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 in vitro and its validation in comparison with conventional clonogenic radiation survival analysis. We combined results from this highthroughput 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 NFE2L2, a frequent event in lung squamous cancers, confers radiation resistance. An expressionbased, in silico screen nominated inhibitors of phosphoinositide 3-kinase (PI3K) as NFE2L2 antagonists. We showed that the selective PI3K inhibitor, NVP-BKM120, both decreased NRF2 protein levels and sensitized NFE2L2 or KEAP1-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 largescale 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.

Original languageEnglish (US)
Pages (from-to)6289-6298
Number of pages10
JournalCancer Research
Volume73
Issue number20
DOIs
StatePublished - Oct 15 2013

ASJC Scopus subject areas

  • Oncology
  • Cancer Research

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  • Cite this

    Abazeed, M. E., Adams, D. J., Hurov, K. E., Tamayo, P., Creighton, C. J., Sonkin, D., Giacomelli, A. O., Du, C., Fries, D. F., Wong, K. K., Mesirov, J. P., Loeffler, J. S., Schreiber, S. L., Hammerman, P. S., & Meyerson, M. (2013). Integrative radiogenomic profiling of squamous cell lung Cancer. Cancer Research, 73(20), 6289-6298. https://doi.org/10.1158/0008-5472.CAN-13-1616