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Mathematical modeling of noise and discovery of genetic expression classes in gliomas

Oncogene volume 21, pages 7164–7174 (2002)Cite this article

Abstract

The microarray array experimental system generates noisy data that require validation by other experimental methods for measuring gene expression. Here we present an algebraic modeling of noise that extracts expression measurements true to a high degree of confidence. This work profiles the expression of 19 200 cDNAs in 35 human gliomas; the experiments are designed to generate four replicate spots/gene with switching of probes. The validity of the extracted measurements is confirmed by: (1) cluster analysis that generates a molecular classification differentiating glioblastoma from lower-grade tumors and radiation necrosis; (2) By what other investigators have reported in gliomas using paradigms for assaying molecular expression other than gene profiling; and (3) Real-time RT–PCR. The results yield a genetic analysis of gliomas and identify classes of genetic expression that link novel genes to the biology of gliomas.

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Acknowledgements

This work is supported by grants from the National Cancer Institute (R01-CA81367 and R29-CA78825 to HM Fathallah-Shaykh) and by the Elizabeth Saltis Memorial Fund. We are indebted to Roger Rosenberg, James Foreman, and Wadi Jureidini for critical review of this manuscript.

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Authors and Affiliations

  1. Department of Neurological Sciences, Rush Presbyterian–St. Lukes Medical Center, Chicago, 60612, Illinois, IL, USA

    Hassan M Fathallah-Shaykh, Mo Rigen, Li-Juan Zhao, Kanti Bansal, Bin He & Elia DiSavino

  2. Department of Neurosurgery, Rush Presbyterian–St. Lukes Medical Center, Chicago, 60612, Illinois, IL, USA

    Leonard Cerullo, Kelvin Von Roenn, Richard Byrne, Lorenzo Munoz & Gail L Rosseau

  3. Department of Neurosurgery, The University of Illinois at Chicago, Chicago, 60612, Illinois, IL, USA

    Herbert H Engelhard

  4. Department of Neurosurgery, The Cook County Hospital, Chicago, 60612, Illinois, IL, USA

    Roberta Glick & Terry Lichtor

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  1. Hassan M Fathallah-Shaykh
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Correspondence to Hassan M Fathallah-Shaykh.

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Fathallah-Shaykh, H., Rigen, M., Zhao, LJ. et al. Mathematical modeling of noise and discovery of genetic expression classes in gliomas. Oncogene 21, 7164–7174 (2002). https://doi.org/10.1038/sj.onc.1205654

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