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G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data

Author

Listed:
  • Mehmet Baysan
  • Serdar Bozdag
  • Margaret C Cam
  • Svetlana Kotliarova
  • Susie Ahn
  • Jennifer Walling
  • Jonathan K Killian
  • Holly Stevenson
  • Paul Meltzer
  • Howard A Fine

Abstract

Glioblastoma Multiforme (GBM) is a tumor with high mortality and no known cure. The dramatic molecular and clinical heterogeneity seen in this tumor has led to attempts to define genetically similar subgroups of GBM with the hope of developing tumor specific therapies targeted to the unique biology within each of these subgroups. Recently, a subset of relatively favorable prognosis GBMs has been identified. These glioma CpG island methylator phenotype, or G-CIMP tumors, have distinct genomic copy number aberrations, DNA methylation patterns, and (mRNA) expression profiles compared to other GBMs. While the standard method for identifying G-CIMP tumors is based on genome-wide DNA methylation data, such data is often not available compared to the more widely available gene expression data. In this study, we have developed and evaluated a method to predict the G-CIMP status of GBM samples based solely on gene expression data.

Suggested Citation

  • Mehmet Baysan & Serdar Bozdag & Margaret C Cam & Svetlana Kotliarova & Susie Ahn & Jennifer Walling & Jonathan K Killian & Holly Stevenson & Paul Meltzer & Howard A Fine, 2012. "G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data," PLOS ONE, Public Library of Science, vol. 7(11), pages 1-10, November.
    • Handle: RePEc:plo:pone00:0047839
    DOI: 10.1371/journal.pone.0047839
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    References listed on IDEAS

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    1. Sevin Turcan & Daniel Rohle & Anuj Goenka & Logan A. Walsh & Fang Fang & Emrullah Yilmaz & Carl Campos & Armida W. M. Fabius & Chao Lu & Patrick S. Ward & Craig B. Thompson & Andrew Kaufman & Olga Gur, 2012. "IDH1 mutation is sufficient to establish the glioma hypermethylator phenotype," Nature, Nature, vol. 483(7390), pages 479-483, March.
    2. Nicholas F Marko & John Quackenbush & Robert J Weil, 2011. "Why Is There a Lack of Consensus on Molecular Subgroups of Glioblastoma? Understanding the Nature of Biological and Statistical Variability in Glioblastoma Expression Data," PLOS ONE, Public Library of Science, vol. 6(7), pages 1-19, July.
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