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Biostatistical algorithms for omics data in oncology - Application to DNA copy number microarray experiments

Philippe Hupé
Abstract : Cancer is a major cause of death and lots of effort must be made to defeat the disease. Microarray technology is a powerful tool very helpful in oncology in order to better understand the molecular mechanisms involved in tumoral progression. We know that cancer is due to a modification of the gene regulation. Then, the study of gene expression in tumours is a valuable information in order to understand the biology of the disease and to identify new prognostic and predictive factors so that the clinician can tailor the therapy for each patient. Besides the modification of gene expression, tumours have chromosome alterations and especially a change of their DNA copy number. There are microarrays which allow the quantification of DNA copy number. The raw data obtained from the microarray technology need appropriate statistical processing so that they can be biologically and clinically meaningful. This is precisely the goal of the present work. Thus, statistical methods have been developed in order to normalise and extract the biological information from microarrays devoted to the study of DNA copy number in tumours. The methods have been applied in uveal melanoma in order to identify high-risk tumours. The integrative analysis of different types of molecular profiles is a challenge in biostatistics. Therefore, a statistical method able to combine both gene expression and DNA copy number data has been developed in the framework of supervised classification. The statistical properties of the method have been studied and its performance has been evaluated on both simulated and real data.
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https://pastel.archives-ouvertes.fr/pastel-00004333
Contributor : Ecole Agroparistech <>
Submitted on : Thursday, March 19, 2009 - 8:00:00 AM
Last modification on : Monday, October 19, 2020 - 11:08:08 AM
Long-term archiving on: : Friday, October 19, 2012 - 12:20:25 PM

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Philippe Hupé. Biostatistical algorithms for omics data in oncology - Application to DNA copy number microarray experiments. Mathematics [math]. AgroParisTech, 2008. English. ⟨NNT : 2008AGPT0069⟩. ⟨pastel-00004333⟩

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