The Cancer Cell Line Encyclopedia Enables Predictive Modelling of Anticancer Drug Sensitivity

Nature. 2012 Mar 28;483(7391):603-7. doi: 10.1038/nature11003.

Abstract

The systematic translation of cancer genomic data into knowledge of tumour biology and therapeutic possibilities remains challenging. Such efforts should be greatly aided by robust preclinical model systems that reflect the genomic diversity of human cancers and for which detailed genetic and pharmacological annotation is available. Here we describe the Cancer Cell Line Encyclopedia (CCLE): a compilation of gene expression, chromosomal copy number and massively parallel sequencing data from 947 human cancer cell lines. When coupled with pharmacological profiles for 24 anticancer drugs across 479 of the cell lines, this collection allowed identification of genetic, lineage, and gene-expression-based predictors of drug sensitivity. In addition to known predictors, we found that plasma cell lineage correlated with sensitivity to IGF1 receptor inhibitors; AHR expression was associated with MEK inhibitor efficacy in NRAS-mutant lines; and SLFN11 expression predicted sensitivity to topoisomerase inhibitors. Together, our results indicate that large, annotated cell-line collections may help to enable preclinical stratification schemata for anticancer agents. The generation of genetic predictions of drug response in the preclinical setting and their incorporation into cancer clinical trial design could speed the emergence of 'personalized' therapeutic regimens.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Antineoplastic Agents / pharmacology
  • Cell Line, Tumor
  • Cell Lineage
  • Chromosomes, Human / genetics
  • Clinical Trials as Topic / methods
  • Databases, Factual*
  • Drug Screening Assays, Antitumor / methods*
  • Encyclopedias as Topic*
  • Gene Expression Profiling
  • Gene Expression Regulation, Neoplastic
  • Genes, ras / genetics
  • Genome, Human / genetics
  • Genomics
  • Humans
  • Mitogen-Activated Protein Kinase Kinases / antagonists & inhibitors
  • Mitogen-Activated Protein Kinase Kinases / metabolism
  • Models, Biological*
  • Neoplasms / drug therapy*
  • Neoplasms / genetics
  • Neoplasms / metabolism
  • Neoplasms / pathology*
  • Pharmacogenetics
  • Plasma Cells / cytology
  • Plasma Cells / drug effects
  • Plasma Cells / metabolism
  • Precision Medicine / methods
  • Receptor, IGF Type 1 / antagonists & inhibitors
  • Receptor, IGF Type 1 / metabolism
  • Receptors, Aryl Hydrocarbon / genetics
  • Receptors, Aryl Hydrocarbon / metabolism
  • Sequence Analysis, DNA
  • Topoisomerase Inhibitors / pharmacology

Substances

  • Antineoplastic Agents
  • Receptors, Aryl Hydrocarbon
  • Topoisomerase Inhibitors
  • Receptor, IGF Type 1
  • Mitogen-Activated Protein Kinase Kinases

Associated data

  • GEO/GSE36139