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  • Oncogenomics
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Gene expression profiling identifies molecular subtypes of gliomas

Oncogene volume 22, pages 4918–4923 (2003)Cite this article

An Erratum to this article was published on 13 July 2006

Abstract

Identification of distinct molecular subtypes is a critical challenge for cancer biology. In this study, we used Affymetrix high-density oligonucleotide arrays to identify the global gene expression signatures associated with gliomas of different types and grades. Here, we show that the global transcriptional profiles of gliomas of different types and grades are distinct from each other and from the normal brain. To determine whether our data could be used to uncover molecular subtypes without prior knowledge of pathologic type and grade, we performed K-means clustering analysis and found evidence for three clusters with the aid of multidimensional scaling plots. These clusters corresponded to glioblastomas, lower grade astrocytomas and oligodendrogliomas (P<0.00001). A predictor constructed from the 170 genes that are most differentially expressed between the subsets correctly identified the type and grade of all samples, indicating that a relatively small number of genes can be used to distinguish between these molecular subtypes. These results further define molecular subsets of gliomas which may potentially be used for patient stratification, and suggest potential targets for treatment.

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Acknowledgements

This work was supported by U01 CA88127 from the National Cancer Institute (SFN) and K08NS43147 from the National Institute of Neurological Disorders and Stroke (PSM). PSM was also supported by an Accelerate Brain Cancer Cure Award, a Henry E Singleton Brain Tumor Fellowship, a generous donation from the Kevin Riley family to UCLA Comprehensive Brain Tumor Program, and the Harry Allgauer Foundation through The Doris R Ullmann Fund for Brain Tumor Research Technologies. Tao Shi is a predoctoral trainee supported by the UCLA IGERT Bioinformatics Program funded by NSF DGE 9987641.

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Author notes

  1. Paul S Mischel and Stanley F Nelson: These authors codirected this work

Authors and Affiliations

  1. Department of Human Genetics, Henry E. Singleton Brain Tumor Program, UCLA School of Medicine, Los Angeles, 90095, CA, USA

    Ruty Shai, Tao Shi, Steve Horvath & Stanley F Nelson

  2. Department of Biostatistics, Henry E. Singleton Brain Tumor Program, UCLA School of Medicine, Los Angeles, 90095, CA, USA

    Tao Shi & Steve Horvath

  3. Department of Neurosurgery, Henry E. Singleton Brain Tumor Program, UCLA School of Medicine, Los Angeles, 90095, CA, USA

    Thomas J Kremen & Linda M Liau

  4. Department of Neurology, Henry E. Singleton Brain Tumor Program, UCLA School of Medicine, Los Angeles, 90095, CA, USA

    Timothy F Cloughesy

  5. Department of Pathology and Laboratory Medicine, Henry E. Singleton Brain Tumor Program, UCLA School of Medicine, Los Angeles, 90095, CA, USA

    Paul S Mischel

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Correspondence to Paul S Mischel.

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Shai, R., Shi, T., Kremen, T. et al. Gene expression profiling identifies molecular subtypes of gliomas. Oncogene 22, 4918–4923 (2003). https://doi.org/10.1038/sj.onc.1206753

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